Login Name Tty Idle Login Time Office Office Phone Host absmeier Eva Absmeier PI Lori pts/20 10:03 Jul 26 18:09 (passmore-mac-21.lmb.internal) adamf Adam Fountain PI Chr *pts/147 1d Jul 16 22:01 (:192) ahowes Anna Howes PI Roger pts/18 3d Jul 15 10:30 (pcterm77.lmb.internal) ahowes Anna Howes PI Roger pts/112 3d Jul 21 10:46 (pcterm77.lmb.internal) ahowes Anna Howes PI Roger pts/198 7:32 Jul 26 20:41 (10.150.132.1) apandura Arun Pandurangan PI pts/4 4d Jul 5 08:10 (gg-1.lmb.internal) apandura Arun Pandurangan PI pts/13 4d Jul 5 08:13 (gg-1.lmb.internal) apandura Arun Pandurangan PI pts/16 10:39 Jul 5 08:14 (gg-1.lmb.internal) apandura Arun Pandurangan PI pts/19 11:42 Jul 5 08:14 (gg-1.lmb.internal) apandura Arun Pandurangan PI pts/32 10:39 Jul 14 08:41 (gg-1.lmb.internal) apandura Arun Pandurangan PI pts/42 11d Jul 5 11:53 (gg-1.lmb.internal) apandura Arun Pandurangan PI pts/93 4d Jul 12 09:08 (gg-1.lmb.internal) blee Byung-Gil Lee PI Jan pts/9 11d Jul 15 00:47 (:1001.0) blee Byung-Gil Lee PI Jan pts/39 3d Jul 22 16:40 (:1001.0) blee Byung-Gil Lee PI Jan pts/57 11d Jul 14 23:19 (:1001.0) blee Byung-Gil Lee PI Jan pts/25 13:08 Jul 26 15:05 (:1001.0) blee Byung-Gil Lee PI Jan pts/103 12d Jul 13 01:02 (:1001.0) blee Byung-Gil Lee PI Jan pts/104 17d Jul 8 23:08 (:1001.0) blee Byung-Gil Lee PI Jan pts/109 14d Jul 12 20:42 (:1001.0) blee Byung-Gil Lee PI Jan pts/114 4:35 Jul 12 20:54 (:1001.0) blee Byung-Gil Lee PI Jan pts/115 12d Jul 13 01:02 (hal.lmb.internal) blee Byung-Gil Lee PI Jan pts/117 11d Jul 15 11:05 (:1001.0) blee Byung-Gil Lee PI Jan pts/121 10d Jul 10 09:29 (:1001.0) blee Byung-Gil Lee PI Jan pts/52 3d Jul 23 22:53 (:1001.0) blee Byung-Gil Lee PI Jan pts/23 11d Jul 15 18:34 (:1001.0) blee Byung-Gil Lee PI Jan pts/73 4d Jul 22 03:43 (:1001.0) blee Byung-Gil Lee PI Jan pts/98 18d Jul 8 22:55 (:1001.0) blee Byung-Gil Lee PI Jan pts/55 17d Jul 9 00:02 (:1001.0) blee Byung-Gil Lee PI Jan pts/76 14d Jul 12 17:25 (:1001.0) blee Byung-Gil Lee PI Jan pts/78 3d Jul 12 20:36 (:1001.0) blee Byung-Gil Lee PI Jan pts/74 10d Jul 13 00:18 (:1001.0) blee Byung-Gil Lee PI Jan pts/136 9:51 Jul 26 18:22 (hex.lmb.internal) blee Byung-Gil Lee PI Jan pts/134 11d Jul 15 11:06 (:1001.0) blee Byung-Gil Lee PI Jan pts/149 5d Jul 22 03:45 (:1001.0) blee Byung-Gil Lee PI Jan pts/160 5d Jul 22 03:46 (:1001.0) blee Byung-Gil Lee PI Jan pts/169 4d Jul 22 10:08 (:1001.0) blee Byung-Gil Lee PI Jan pts/173 2d Jul 24 17:08 (:1001.0) blee Byung-Gil Lee PI Jan pts/174 2d Jul 24 15:27 (:1001.0) blee Byung-Gil Lee PI Jan pts/165 4d Jul 22 04:59 (:1001.0) blee Byung-Gil Lee PI Jan pts/27 7:27 Jul 22 16:35 (:1001.0) blee Byung-Gil Lee PI Jan pts/179 2d Jul 24 15:29 (:1001.0) blee Byung-Gil Lee PI Jan pts/183 2d Jul 24 15:24 (:1001.0) blee Byung-Gil Lee PI Jan pts/180 2d Jul 24 17:09 (:1001.0) blee Byung-Gil Lee PI Jan pts/181 2d Jul 24 17:16 (:1001.0) blee Byung-Gil Lee PI Jan pts/187 2d Jul 24 17:19 (:1001.0) cemremnv Melek Manav PI Lori pts/46 7:15 Jul 23 09:57 (passmore-mac-24.lmb.internal) cemremnv Melek Manav PI Lori pts/111 7:50 Jul 23 09:59 (passmore-mac-24.lmb.internal) cemremnv Melek Manav PI Lori pts/125 7:11 Jul 23 11:00 (passmore-mac-24.lmb.internal) cemremnv Melek Manav PI Lori pts/138 3d Jul 23 11:54 (passmore-mac-24.lmb.internal) cemremnv Melek Manav PI Lori pts/177 7:29 Jul 26 20:37 (passmore-mac-24.lmb.internal) cemremnv Melek Manav PI Lori pts/197 7:50 Jul 26 20:05 (hal.lmb.internal) chaaban Sami Chaaban PI Andr pts/86 4d Jul 22 13:52 (pcterm79.lmb.internal) chaaban Sami Chaaban PI Andr pts/101 9:41 Jul 26 10:17 (pcterm79.lmb.internal) chaaban Sami Chaaban PI Andr pts/113 4:08 Jul 27 00:02 (atg.lmb.internal) clomelino Carrie Lomelino PI R pts/153 9:55 Jul 26 18:06 (rlw-mac-23.lmb.internal) clomelino Carrie Lomelino PI R pts/204 13:35 Jul 26 13:53 (pcterm57.lmb.internal) cventura Camilla Ventura Sant pts/38 8:39 Jul 23 19:33 (pcterm82.lmb.internal) cventura Camilla Ventura Sant pts/128 16:19 Jul 26 11:25 (pcterm82.lmb.internal) cventura Camilla Ventura Sant pts/161 8:39 Jul 26 19:34 (hex.lmb.internal) cventura Camilla Ventura Sant pts/182 9:57 Jul 24 18:34 (pcterm82.lmb.internal) dbarford David Barford PI Ven pts/24 5:48 Jul 26 22:18 (10.150.132.4) dbellini Dom Bellini PI David pts/164 13:01 Jul 20 10:29 (dbarford-mac-12.lmb.internal) dmihaylov Daniel Mihaylov PI R pts/10 10:05 Jul 14 18:00 (:179) dmihaylov Daniel Mihaylov PI R pts/105 11:04 Jul 14 23:08 (:179) fali Ferdos Ali PI Andrew pts/2 10:30 Jul 26 16:09 (pcterm81.lmb.internal) gsharov Grigory Sharov PI An pts/156 10:25 Jul 26 11:11 (em-pc-2.lmb.internal) gsharov Grigory Sharov PI An pts/176 16:29 Jul 22 15:49 (em-pc-2.lmb.internal) idiaz Irene Diaz Lopez PI pts/127 11d Jul 15 12:31 (pcterm95.lmb.internal) idiaz Irene Diaz Lopez PI pts/132 11d Jul 15 12:31 (pcterm95.lmb.internal) jdobbs Joseph Dobbs PI Venk pts/116 4d Jul 16 16:10 (lg23.lmb.internal) jdobbs Joseph Dobbs PI Venk pts/54 12:15 Jul 23 11:48 (lg23.lmb.internal) jms Short J pts/213 15:00 Jul 26 13:10 (atg.lmb.internal) jquerido Jailson Brito Querid pts/150 5d Jul 21 15:01 (pcterm91.lmb.internal) jrodrigu Juan Rodriguez PI Lo pts/1 15 Jul 6 19:49 (passmore-mac-19.lmb.internal) kmuir Kyle Muir PI David B pts/11 8:35 Jul 17 19:38 (dbarford-mac-7.lmb.internal) kmuir Kyle Muir PI David B pts/145 10:05 Jul 16 20:27 (dbarford-mac-7.lmb.internal) mcarmina Manuel Carminati PI pts/65 15d Jul 11 19:16 (passmore-mac-16.lmb.internal) mcarmina Manuel Carminati PI pts/71 3d Jul 22 01:44 (passmore-mac-16.lmb.internal) mcarmina Manuel Carminati PI pts/102 3d Jul 24 01:31 (passmore-mac-16.lmb.internal) mcarmina Manuel Carminati PI pts/106 13d Jul 12 15:59 (passmore-mac-16.lmb.internal) mcarmina Manuel Carminati PI pts/140 9d Jul 17 00:15 (passmore-mac-16.lmb.internal) mcarmina Manuel Carminati PI pts/155 5d Jul 17 23:27 (passmore-mac-16.lmb.internal) mcarmina Manuel Carminati PI pts/159 5d Jul 18 13:40 (passmore-mac-16.lmb.internal) minkyung Min Kim PI Manu Hegd pts/22 10d Jul 12 17:23 (hal.lmb.internal) minkyung Min Kim PI Manu Hegd pts/79 14d Jul 12 17:25 (hal.lmb.internal) minkyung Min Kim PI Manu Hegd pts/95 13:08 Jul 26 15:05 (hal.lmb.internal) mjones Morgan Jones PI Kiyo *pts/81 14d Jul 12 19:02 (:187) mwilkin Max Wilkinson PI Kiy pts/28 8:46 Jul 26 12:57 (kn-mac-12.lmb.internal) mwilkin Max Wilkinson PI Kiy pts/35 15:16 Jul 26 12:57 (kn-mac-12.lmb.internal) mwilkin Max Wilkinson PI Kiy pts/193 3:57 Jul 26 23:28 (hex.lmb.internal) mwilkin Max Wilkinson PI Kiy pts/196 2:44 Jul 27 01:24 (atg.lmb.internal) njean Nicolas Jean PI Jan pts/82 6d Jul 5 14:10 (jyl-mac-8.lmb.internal) njean Nicolas Jean PI Jan pts/83 5d Jul 5 14:11 (jyl-mac-8.lmb.internal) njean Nicolas Jean PI Jan pts/84 3d Jul 5 14:11 (jyl-mac-8.lmb.internal) nleneva Natalya Leneva PI Jo pts/15 11:50 Jul 26 16:18 (:1002) nleneva Natalya Leneva PI Jo pts/31 25d Jul 1 13:47 (:1002) nleneva Natalya Leneva PI Jo pts/53 25d Jul 1 13:48 (:1002) nleneva Natalya Leneva PI Jo pts/99 21d Jul 5 15:00 (:1002) nleneva Natalya Leneva PI Jo pts/49 3d Jul 23 13:06 (:1002) nleneva Natalya Leneva PI Jo pts/90 3d Jul 7 13:07 (:1002) nleneva Natalya Leneva PI Jo pts/87 3d Jul 15 22:11 (:1002) nleneva Natalya Leneva PI Jo pts/151 3d Jul 19 20:52 (:1002) nleneva Natalya Leneva PI Jo pts/148 10:28 Jul 21 11:16 (:1002) nleneva Natalya Leneva PI Jo pts/162 12:18 Jul 26 15:55 (:1002) nleneva Natalya Leneva PI Jo pts/167 10:35 Jul 26 15:55 (:1002) pemsley Paul Emsley PI Garib pts/123 50 Jul 27 03:23 (atg.lmb.internal) pemsley Paul Emsley PI Garib pts/154 Jul 27 03:36 (atg.lmb.internal) pemsley Paul Emsley PI Garib pts/170 Jul 27 03:38 (garib-pc-4.lmb.internal) pemsley Paul Emsley PI Garib pts/192 1:20 Jul 26 23:09 (atg.lmb.internal) root root pts/8 3d Jul 23 07:57 (pcterm02.lmb.internal) sfica Sebastian Fica PI Ki pts/94 19:27 Jul 22 14:05 (lg3.lmb.internal) shaoxia Shaoxia Chen pts/50 7:52 Jul 14 20:00 (pcterm21.lmb.internal) shaoxia Shaoxia Chen pts/137 7:50 Jul 23 17:04 (pcterm21.lmb.internal) skraatz Sebastian Kraatz PI pts/100 4d Jul 22 09:32 (lg8.lmb.internal) skraatz Sebastian Kraatz PI pts/163 4d Jul 22 09:36 (lg8.lmb.internal) sshaikh Saher Shaikh PI Ingo pts/188 2:59 Jul 26 18:11 (:92) sshaikh Saher Shaikh PI Ingo pts/199 7:05 Jul 26 21:09 (:92) swolf Steffen Wolf PI Kate pts/171 2d Jul 24 22:15 (lg45.lmb.internal) swolf Steffen Wolf PI Kate pts/178 4d Jul 22 17:54 (lg45.lmb.internal) syatskev Stanislau Yatskevich pts/146 11:40 Jul 21 12:07 (dbarford-mac-3.lmb.internal) syatskev Stanislau Yatskevich pts/166 17:50 Jul 24 17:01 (dbarford-mac-3.lmb.internal) tbehr Tiana Behr PI Wanda pts/124 6d Jul 16 17:21 (:pts/133:S.0) tbehr Tiana Behr PI Wanda *pts/133 6d Jul 13 15:54 (pcterm99.lmb.internal) tbehr Tiana Behr PI Wanda pts/168 10:12 Jul 26 16:58 (hex.lmb.internal) tdendooven Tom Dendooven PI Dav pts/56 18d Jul 5 12:35 (dbarford-mac-15.lmb.internal) vaithish Vaithish Velazhahan pts/26 11:18 Jul 22 13:10 (cgt-mac-14.lmb.internal) vchandra Vish Chandrasekaran pts/108 11d Jul 9 17:06 (lg8.lmb.internal) vchang Veronica Chang PI Ra pts/34 4d Jul 5 13:39 (pcterm65.lmb.internal) vhale Victoria Hale PI Jan pts/21 10d Jul 6 17:18 (jyl-mac-26.lmb.internal) vhale Victoria Hale PI Jan pts/72 11:07 Jul 5 13:41 (jyl-mac-26.lmb.internal) vicente Vicente Herrero PI E pts/172 5:49 Jul 26 11:46 (derivery-pc-7.lmb.internal) yshi Yang Shi PI Michel G pts/48 2d Jul 15 13:06 (lg19-1g.lmb.internal) yshi Yang Shi PI Michel G pts/110 7d Jul 12 16:41 (lg19-1g.lmb.internal) yshi Yang Shi PI Michel G pts/77 18d Jul 9 01:34 (:183.0) yshi Yang Shi PI Michel G pts/45 16d Jul 9 01:18 (:183.0) yshi Yang Shi PI Michel G pts/80 18d Jul 9 02:10 (:183.0) yshi Yang Shi PI Michel G pts/0 6d Jul 11 01:22 (:183.0) yshi Yang Shi PI Michel G pts/135 6d Jul 17 14:21 (lg19-1g.lmb.internal) yshi Yang Shi PI Michel G pts/158 4d Jul 22 12:54 (lg19-1g.lmb.internal) yuel Yue Liu PI Jan Lowe pts/36 6d Jul 18 08:43 (jyl-mac-34.lmb.internal) yyang Yang Yang PI Sjors S pts/7 11d Jul 12 12:45 (hex.lmb.internal) yyang Yang Yang PI Sjors S pts/143 7d Jul 19 16:51 (pcterm08.lmb.internal) From tar file: /netscr/pemsley/autobuild/sources/coot-0.9.6.1-pre-revision-10661.tar.gz building in: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre CFLAGS: CXXFLAGS: -g -O3 -ffast-math CPPFLAGS: LDFLAGS: PATH: /lmb/home/pemsley/cmake/bin:/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin:/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin:/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2/bin:/usr/share/intltool-debian:/lmb/home/pemsley/bin:/lmb/home/pemsley/cmake/bin:/lmb/home/public/xtal/CCP4/ccp4-64/ccp4-6.5-i2/arp_warp_7.5/bin/bin-x86_64-Linux:/lmb/home/public/xtal/CCP4/ccp4-64/ccp4-6.5-i2/ccp4-6.5/etc:/lmb/home/public/xtal/CCP4/ccp4-64/ccp4-6.5-i2/ccp4-6.5/bin:/lmb/home/public/xtal/CCP4/ccp4-64/ccp4-6.5-i2/ccp4-6.5/share/xia2/Applications:/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin:/lmb/home/public/xtal/CCP4/ccp4-64/arp_warp_8.0/bin/bin-x86_64-Linux:/lmb/home/public/xtal/CCP4/ccp4-64/ccp4-7.1/etc:/lmb/home/public/xtal/CCP4/ccp4-64/ccp4-7.1/bin:/lmb/home/sharp/BusterVersions/buster_snapshot_20200918/scripts:/lmb/home/sharp/BusterVersions/buster_snapshot_20200918/MakeTNT/bin:/lmb/home/sharp/BusterVersions/buster_snapshot_20200918/autoBUSTER/bin/linux64:/lmb/home/sharp/BusterVersions/buster_snapshot_20200918/scripts:/lmb/home/sharp/sharp-2.9.0/scripts:/public/xtal/imosflm/src:/public/xtal/linux-bin:/public/xtal/bin:/public/xtal/CCP4/ccp4-64/Prerelease/bin:/net/nfs1/public/xtal/autoPROC/autoPROC_snapshot_20200918/autoPROC/bin/linux64:/public/xtal/cns/cns_solve_1.3_mp/intel-x86_64bit-linux/bin:/public/xtal/cns/cns_solve_1.3_mp/intel-x86_64bit-linux/utils:.:/lmb/home/public/xtal/main2020/:/lmb/home/public/xtal/main2020//prog:/lmb/home/public/xtal/main2020//config:/lmb/home/public/xtal/Phenix/Phenix64/phenix-1.19.2-4158/build/bin:/public/ImageMagick/latest/bin:/gridware/sge/bin/lx24-amd64:.:/bin:/usr/bin:/usr/local/bin:/public/com:/public/bin/noarch:/public/bin/i686:/lmb/home/pemsley/bzr:/lmb/home/pemsley/git/bin:/public/EM/OpenMPI/openmpi/bin:/lmb/home/pemsley/bin:/lmb/home/flong/workplace/LIBG/bin:/lmb/home/pemsley/glade/bin:/lmb/home/pemsley/cmake/bin:/lmb/home/pemsley/vim/bin:/lmb/home/pemsley/gqview/bin:/lmb/home/pemsley/bin.Linux:/lmb/home/pemsley/x86_64-linux/bin:/lmb/home/pemsley/build/bin:/lmb/home/pemsley/build/Linux/bin:/usr/sbin:/usr/X11R6/bin:/usr/bin/X11:/lmb/home/public/CSD/bin:/lmb/home/public/xtal/morda/MoRDa_DB/bin_linux:/public/xtal/vmd:/public/xtal/Raster3D/Raster3D_2.5f/bin:/public/xtal/situs/Situs_2.6.3/bin:/public/xtal/mafft/mafft-6.240/scripts:/public/xtal/mafft/mafft-6.240/binaries:/public/xtal/script:/lmb/home/public/xtal/CCP4/clustalw-2.0.9/bin:/lmb/home/public/xtal/CCP4/fasta-35.4.1/bin:/lmb/home/public/xtal/CCP4/graphviz-2.20.2/bin:/public/xtal/HKL:/public/xtal/XDS-versions/current:/public/xtal/XDS-versions/share:/public/xtal/XDS-versions/XDS-utils:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc using this guile: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin/guile ./configure --prefix=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python --with-fftw-prefix=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python --with-goocanvas-prefix=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python --with-glut-prefix=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python COOT_BUILD_INFO_STRING=built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021 --with-guile --with-guile-gtk --with-guile-gtk-prefix=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python --with-python --with-pygtk --with-sqlite3 --with-enhanced-ligand-tools --with-boost=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python --with-boost-libdir=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib --with-rdkit-prefix=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python --enable-shared checking for a BSD-compatible install... /bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... gawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for style of include used by make... GNU checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking dependency style of gcc... gcc3 checking for library containing strerror... none required checking for gcc... (cached) gcc checking whether we are using the GNU C compiler... (cached) yes checking whether gcc accepts -g... (cached) yes checking for gcc option to accept ISO C89... (cached) none needed checking dependency style of gcc... (cached) gcc3 checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for ANSI C header files... yes checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... gcc3 checking build system type... x86_64-unknown-linux-gnu checking host system type... x86_64-unknown-linux-gnu checking how to print strings... printf checking for a sed that does not truncate output... /bin/sed checking for fgrep... /bin/grep -F checking for ld used by gcc... /bin/ld checking if the linker (/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /bin/nm -B checking the name lister (/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 3458764513820540925 checking whether the shell understands some XSI constructs... yes checking whether the shell understands "+="... yes checking how to convert x86_64-unknown-linux-gnu file names to x86_64-unknown-linux-gnu format... func_convert_file_noop checking how to convert x86_64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop checking for /bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /bin/nm -B output from gcc object... ok checking for sysroot... no checking for mt... no checking if : is a manifest tool... no checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... no checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /bin/ld -m elf_x86_64 checking if the linker (/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the g++ linker (/bin/ld -m elf_x86_64) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... no checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking which libtool initialization strategy to adopt... AC-PROG-LIBTOOL checking what warning flags to pass to the C compiler... -Wall -Wunused checking what language compliance flags to pass to the C compiler... checking what warning flags to pass to the C++ compiler... -Wall -Wno-unused checking what language compliance flags to pass to the C++ compiler... checking sys/stdtypes.h usability... no checking sys/stdtypes.h presence... no checking for sys/stdtypes.h... no checking for OpenMP flag of C compiler... -fopenmp checking whether g++ supports C++11 features by default... no checking whether g++ supports C++11 features with -std=gnu++11... yes checking for std::thread in thread... yes checking for pkg-config... /bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for GLIB... yes checking if this is MINGW on Windows... no checking for LIBPNG... yes checking for CAIRO... yes checking for SQLite3... yes checking for mmdb2... yes checking for ssm... yes no checking for non-prefixed single-precision FFTW2 (fftw.h)... yes checking for Clipper... yes Congratulations, you are using Guile checking for guile... /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin/guile checking for guile-config... /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin/guile-config checking for guile-tools... /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin/guile-tools checking libguile compile flags... -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread checking libguile link flags... -P -pthread -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lguile -lltdl -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgmp -lcrypt -lm -lltdl checking for Guile-Lib... yes checking for guile-gui... yes checking GUILE_VERSION: 1.8 checking for gsl-config... /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin/gsl-config checking for GSL - version >= 1.3... yes checking for GTK... yes checking for GNOME_CANVAS... yes checking for pkg-config... /bin/pkg-config checking for GtkGLExt - version >= 1.0.0... yes (version 1.2.0) checking for glLineWidth in -lGL... yes checking for GLUT... yes checking for Python... /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin/python-config checking Python.h usability... yes checking Python.h presence... yes checking for Python.h... yes Cool, using Python checking for PYGTK... yes Good we have pygtk checking for python version... 2.7 checking for python platform... linux2 checking for python script directory... ${prefix}/lib/python2.7/site-packages checking for python extension module directory... ${exec_prefix}/lib/python2.7/site-packages checking for guile-gtk... /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python checking for boostlib >= (102000) includes in "/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include"... yes checking for boostlib >= (102000) lib path in "/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/x86_64-linux-gnu"... no checking for boostlib >= (102000) lib path in "/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib64"... no checking for boostlib >= (102000) lib path in "/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/libx32"... no checking for boostlib >= (102000) lib path in "/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib"... yes checking for boostlib >= (102000)... yes checking for python2.7... /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin/python2.7 checking for a version of Python >= '2.1.0'... yes checking for the distutils Python package... yes checking for Python include path... -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 checking for Python library path... -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lpython2.7 checking for Python site-packages path... /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages checking python extra libraries... -lpthread -ldl -lutil -lm checking python extra linking flags... -Xlinker -export-dynamic checking consistency of all components of python development environment... yes checking whether the Boost::Python library is available... yes checking whether boost_python is the correct library... no checking whether boost_python27 is the correct library... yes checking for Goocanvas... yes ENHANCED_LIGAND_TOOLS_CPPFLAGS -DMAKE_ENHANCED_LIGAND_TOOLS Not using MySQL database checking for curl >= 7.9.7... 7.65.3 checking build type... Linux-x86_64-scientific-linux-7.9-python-gtk2 checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating macros/Makefile config.status: creating pdb-templates/Makefile config.status: creating scheme/Makefile config.status: creating python/Makefile config.status: creating compat/Makefile config.status: creating utils/Makefile config.status: creating coot-utils/Makefile config.status: creating protein_db/Makefile config.status: creating ccp4mg-utils/Makefile config.status: creating coords/Makefile config.status: creating db-main/Makefile config.status: creating density-contour/Makefile config.status: creating angles/Makefile config.status: creating mini-mol/Makefile config.status: creating skeleton/Makefile config.status: creating ligand/Makefile config.status: creating geometry/Makefile config.status: creating ideal/Makefile config.status: creating build/Makefile config.status: creating analysis/Makefile config.status: creating high-res/Makefile config.status: creating tw/Makefile config.status: creating cootaneer/Makefile config.status: creating cootilus/Makefile config.status: creating greg-tests/Makefile config.status: creating python-tests/Makefile config.status: creating lidia-core/Makefile config.status: creating goograph/Makefile config.status: creating lbg/Makefile config.status: creating doc/Makefile config.status: creating src/Makefile config.status: creating src/coot config.status: creating python/coot_load_modules.py config.status: creating data/Makefile config.status: creating data/rama-coeffs/Makefile config.status: creating data/metal/Makefile config.status: creating data/cho-models/Makefile config.status: creating data/cho-acedrg/Makefile config.status: creating pixmaps/Makefile config.status: creating pixmaps/icons/Makefile config.status: creating rama-data/Makefile config.status: creating man/Makefile config.status: creating pli/Makefile config.status: creating fonts/Makefile config.status: creating pyrogen/Makefile config.status: creating pyrogen/pyrogen config.status: creating auxil/Makefile config.status: creating auxil/catcheck/Makefile config.status: creating auxil/rama/Makefile config.status: creating auxil/sec-str/Makefile config.status: creating auxil/strand-analysis/Makefile config.status: creating auxil/vectors/Makefile config.status: creating rcrane/Makefile config.status: executing depfiles commands config.status: executing libtool commands Making all in auxil make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil' Making all in catcheck make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/catcheck' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/catcheck' Making all in rama make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/rama' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/rama' Making all in sec-str make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/sec-str' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/sec-str' Making all in strand-analysis make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/strand-analysis' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/strand-analysis' Making all in vectors make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/vectors' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/vectors' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil' make[2]: Nothing to be done for `all-am'. make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil' Making all in scheme make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/scheme' make[1]: Nothing to be done for `all'. make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/scheme' Making all in python make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/python' make[1]: Nothing to be done for `all'. make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/python' Making all in pdb-templates make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pdb-templates' make[1]: Nothing to be done for `all'. make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pdb-templates' Making all in macros make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/macros' make[1]: Nothing to be done for `all'. make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/macros' Making all in compat make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/compat' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c -o getopt.lo getopt.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT getopt1.lo -MD -MP -MF .deps/getopt1.Tpo -c -o getopt1.lo getopt1.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c getopt.cc -fPIC -DPIC -o .libs/getopt.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT getopt1.lo -MD -MP -MF .deps/getopt1.Tpo -c getopt1.cc -fPIC -DPIC -o .libs/getopt1.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT getopt1.lo -MD -MP -MF .deps/getopt1.Tpo -c getopt1.cc -o getopt1.o >/dev/null 2>&1 mv -f .deps/getopt1.Tpo .deps/getopt1.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c getopt.cc -o getopt.o >/dev/null 2>&1 mv -f .deps/getopt.Tpo .deps/getopt.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-compat.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib getopt.lo getopt1.lo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/getopt.o .libs/getopt1.o -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-compat.so.0 -o .libs/libcoot-compat.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-compat.so.0" && ln -s "libcoot-compat.so.0.0.0" "libcoot-compat.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-compat.so" && ln -s "libcoot-compat.so.0.0.0" "libcoot-compat.so") libtool: link: ar cru .libs/libcoot-compat.a getopt.o getopt1.o libtool: link: ranlib .libs/libcoot-compat.a libtool: link: ( cd ".libs" && rm -f "libcoot-compat.la" && ln -s "../libcoot-compat.la" "libcoot-compat.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/compat' Making all in utils make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-utils.lo -MD -MP -MF .deps/coot-utils.Tpo -c -o coot-utils.lo coot-utils.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-fasta.lo -MD -MP -MF .deps/coot-fasta.Tpo -c -o coot-fasta.lo coot-fasta.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atomic-numbers.lo -MD -MP -MF .deps/atomic-numbers.Tpo -c -o atomic-numbers.lo atomic-numbers.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT gdk-keysyms.lo -MD -MP -MF .deps/gdk-keysyms.Tpo -c -o gdk-keysyms.lo gdk-keysyms.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT hsv-rgb.lo -MD -MP -MF .deps/hsv-rgb.Tpo -c -o hsv-rgb.lo hsv-rgb.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dodec.lo -MD -MP -MF .deps/dodec.Tpo -c -o dodec.lo dodec.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT win-compat.lo -MD -MP -MF .deps/win-compat.Tpo -c -o win-compat.lo win-compat.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT threads.lo -MD -MP -MF .deps/threads.Tpo -c -o threads.lo threads.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT hsv-rgb.lo -MD -MP -MF .deps/hsv-rgb.Tpo -c hsv-rgb.cc -fPIC -DPIC -o .libs/hsv-rgb.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-fasta.lo -MD -MP -MF .deps/coot-fasta.Tpo -c coot-fasta.cc -fPIC -DPIC -o .libs/coot-fasta.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dodec.lo -MD -MP -MF .deps/dodec.Tpo -c dodec.cc -fPIC -DPIC -o .libs/dodec.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-utils.lo -MD -MP -MF .deps/coot-utils.Tpo -c coot-utils.cc -fPIC -DPIC -o .libs/coot-utils.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT win-compat.lo -MD -MP -MF .deps/win-compat.Tpo -c win-compat.cc -fPIC -DPIC -o .libs/win-compat.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atomic-numbers.lo -MD -MP -MF .deps/atomic-numbers.Tpo -c atomic-numbers.cc -fPIC -DPIC -o .libs/atomic-numbers.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT threads.lo -MD -MP -MF .deps/threads.Tpo -c threads.cc -fPIC -DPIC -o .libs/threads.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT gdk-keysyms.lo -MD -MP -MF .deps/gdk-keysyms.Tpo -c gdk-keysyms.cc -fPIC -DPIC -o .libs/gdk-keysyms.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT win-compat.lo -MD -MP -MF .deps/win-compat.Tpo -c win-compat.cc -o win-compat.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT threads.lo -MD -MP -MF .deps/threads.Tpo -c threads.cc -o threads.o >/dev/null 2>&1 mv -f .deps/win-compat.Tpo .deps/win-compat.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT align-utils.lo -MD -MP -MF .deps/align-utils.Tpo -c -o align-utils.lo align-utils.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT align-utils.lo -MD -MP -MF .deps/align-utils.Tpo -c align-utils.cc -fPIC -DPIC -o .libs/align-utils.o mv -f .deps/threads.Tpo .deps/threads.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pir-alignment.lo -MD -MP -MF .deps/pir-alignment.Tpo -c -o pir-alignment.lo pir-alignment.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT hsv-rgb.lo -MD -MP -MF .deps/hsv-rgb.Tpo -c hsv-rgb.cc -o hsv-rgb.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-fasta.lo -MD -MP -MF .deps/coot-fasta.Tpo -c coot-fasta.cc -o coot-fasta.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pir-alignment.lo -MD -MP -MF .deps/pir-alignment.Tpo -c pir-alignment.cc -fPIC -DPIC -o .libs/pir-alignment.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dodec.lo -MD -MP -MF .deps/dodec.Tpo -c dodec.cc -o dodec.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atomic-numbers.lo -MD -MP -MF .deps/atomic-numbers.Tpo -c atomic-numbers.cc -o atomic-numbers.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT align-utils.lo -MD -MP -MF .deps/align-utils.Tpo -c align-utils.cc -o align-utils.o >/dev/null 2>&1 mv -f .deps/hsv-rgb.Tpo .deps/hsv-rgb.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT split-indices.lo -MD -MP -MF .deps/split-indices.Tpo -c -o split-indices.lo split-indices.cc mv -f .deps/coot-fasta.Tpo .deps/coot-fasta.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT radix.lo -MD -MP -MF .deps/radix.Tpo -c -o radix.lo radix.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pir-alignment.lo -MD -MP -MF .deps/pir-alignment.Tpo -c pir-alignment.cc -o pir-alignment.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT split-indices.lo -MD -MP -MF .deps/split-indices.Tpo -c split-indices.cc -fPIC -DPIC -o .libs/split-indices.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT radix.lo -MD -MP -MF .deps/radix.Tpo -c radix.cc -fPIC -DPIC -o .libs/radix.o mv -f .deps/align-utils.Tpo .deps/align-utils.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT logging.lo -MD -MP -MF .deps/logging.Tpo -c -o logging.lo logging.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-utils.lo -MD -MP -MF .deps/coot-utils.Tpo -c coot-utils.cc -o coot-utils.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT radix.lo -MD -MP -MF .deps/radix.Tpo -c radix.cc -o radix.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT logging.lo -MD -MP -MF .deps/logging.Tpo -c logging.cc -fPIC -DPIC -o .libs/logging.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT split-indices.lo -MD -MP -MF .deps/split-indices.Tpo -c split-indices.cc -o split-indices.o >/dev/null 2>&1 mv -f .deps/dodec.Tpo .deps/dodec.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT backward.lo -MD -MP -MF .deps/backward.Tpo -c -o backward.lo backward.cpp mv -f .deps/radix.Tpo .deps/radix.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT backward.lo -MD -MP -MF .deps/backward.Tpo -c backward.cpp -fPIC -DPIC -o .libs/backward.o mv -f .deps/atomic-numbers.Tpo .deps/atomic-numbers.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT logging.lo -MD -MP -MF .deps/logging.Tpo -c logging.cc -o logging.o >/dev/null 2>&1 mv -f .deps/pir-alignment.Tpo .deps/pir-alignment.Plo mv -f .deps/split-indices.Tpo .deps/split-indices.Plo mv -f .deps/logging.Tpo .deps/logging.Plo mv -f .deps/coot-utils.Tpo .deps/coot-utils.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT backward.lo -MD -MP -MF .deps/backward.Tpo -c backward.cpp -o backward.o >/dev/null 2>&1 mv -f .deps/backward.Tpo .deps/backward.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT gdk-keysyms.lo -MD -MP -MF .deps/gdk-keysyms.Tpo -c gdk-keysyms.cc -o gdk-keysyms.o >/dev/null 2>&1 mv -f .deps/gdk-keysyms.Tpo .deps/gdk-keysyms.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-utils.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib coot-utils.lo coot-fasta.lo atomic-numbers.lo gdk-keysyms.lo hsv-rgb.lo dodec.lo win-compat.lo threads.lo align-utils.lo pir-alignment.lo split-indices.lo radix.lo logging.lo backward.lo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/coot-utils.o .libs/coot-fasta.o .libs/atomic-numbers.o .libs/gdk-keysyms.o .libs/hsv-rgb.o .libs/dodec.o .libs/win-compat.o .libs/threads.o .libs/align-utils.o .libs/pir-alignment.o .libs/split-indices.o .libs/radix.o .libs/logging.o .libs/backward.o -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-utils.so.0 -o .libs/libcoot-utils.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-utils.so.0" && ln -s "libcoot-utils.so.0.0.0" "libcoot-utils.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-utils.so" && ln -s "libcoot-utils.so.0.0.0" "libcoot-utils.so") libtool: link: ar cru .libs/libcoot-utils.a coot-utils.o coot-fasta.o atomic-numbers.o gdk-keysyms.o hsv-rgb.o dodec.o win-compat.o threads.o align-utils.o pir-alignment.o split-indices.o radix.o logging.o backward.o libtool: link: ranlib .libs/libcoot-utils.a libtool: link: ( cd ".libs" && rm -f "libcoot-utils.la" && ln -s "../libcoot-utils.la" "libcoot-utils.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils' Making all in protein_db make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/protein_db' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein_db.lo -MD -MP -MF .deps/protein_db.Tpo -c -o protein_db.lo protein_db.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein_db_utils.lo -MD -MP -MF .deps/protein_db_utils.Tpo -c -o protein_db_utils.lo protein_db_utils.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rna_db.lo -MD -MP -MF .deps/rna_db.Tpo -c -o rna_db.lo rna_db.cpp libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein_db.lo -MD -MP -MF .deps/protein_db.Tpo -c protein_db.cpp -fPIC -DPIC -o .libs/protein_db.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rna_db.lo -MD -MP -MF .deps/rna_db.Tpo -c rna_db.cpp -fPIC -DPIC -o .libs/rna_db.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein_db_utils.lo -MD -MP -MF .deps/protein_db_utils.Tpo -c protein_db_utils.cpp -fPIC -DPIC -o .libs/protein_db_utils.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rna_db.lo -MD -MP -MF .deps/rna_db.Tpo -c rna_db.cpp -o rna_db.o >/dev/null 2>&1 mv -f .deps/rna_db.Tpo .deps/rna_db.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein_db_utils.lo -MD -MP -MF .deps/protein_db_utils.Tpo -c protein_db_utils.cpp -o protein_db_utils.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein_db.lo -MD -MP -MF .deps/protein_db.Tpo -c protein_db.cpp -o protein_db.o >/dev/null 2>&1 mv -f .deps/protein_db_utils.Tpo .deps/protein_db_utils.Plo mv -f .deps/protein_db.Tpo .deps/protein_db.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-protein-db.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib protein_db.lo protein_db_utils.lo rna_db.lo -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/protein_db.o .libs/protein_db_utils.o .libs/rna_db.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-protein-db.so.0 -o .libs/libcoot-protein-db.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-protein-db.so.0" && ln -s "libcoot-protein-db.so.0.0.0" "libcoot-protein-db.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-protein-db.so" && ln -s "libcoot-protein-db.so.0.0.0" "libcoot-protein-db.so") libtool: link: ar cru .libs/libcoot-protein-db.a protein_db.o protein_db_utils.o rna_db.o libtool: link: ranlib .libs/libcoot-protein-db.a libtool: link: ( cd ".libs" && rm -f "libcoot-protein-db.la" && ln -s "../libcoot-protein-db.la" "libcoot-protein-db.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/protein_db' Making all in mini-mol make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mini-mol.lo -MD -MP -MF .deps/mini-mol.Tpo -c -o mini-mol.lo mini-mol.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mini-mol-utils.lo -MD -MP -MF .deps/mini-mol-utils.Tpo -c -o mini-mol-utils.lo mini-mol-utils.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atom-quads.lo -MD -MP -MF .deps/atom-quads.Tpo -c -o atom-quads.lo atom-quads.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mini-mol.lo -MD -MP -MF .deps/mini-mol.Tpo -c mini-mol.cc -fPIC -DPIC -o .libs/mini-mol.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atom-quads.lo -MD -MP -MF .deps/atom-quads.Tpo -c atom-quads.cc -fPIC -DPIC -o .libs/atom-quads.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mini-mol-utils.lo -MD -MP -MF .deps/mini-mol-utils.Tpo -c mini-mol-utils.cc -fPIC -DPIC -o .libs/mini-mol-utils.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mini-mol-utils.lo -MD -MP -MF .deps/mini-mol-utils.Tpo -c mini-mol-utils.cc -o mini-mol-utils.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atom-quads.lo -MD -MP -MF .deps/atom-quads.Tpo -c atom-quads.cc -o atom-quads.o >/dev/null 2>&1 mv -f .deps/mini-mol-utils.Tpo .deps/mini-mol-utils.Plo mv -f .deps/atom-quads.Tpo .deps/atom-quads.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mini-mol.lo -MD -MP -MF .deps/mini-mol.Tpo -c mini-mol.cc -o mini-mol.o >/dev/null 2>&1 mv -f .deps/mini-mol.Tpo .deps/mini-mol.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-mini-mol.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib mini-mol.lo mini-mol-utils.lo atom-quads.lo ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/mini-mol.o .libs/mini-mol-utils.o .libs/atom-quads.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib ../utils/.libs/libcoot-utils.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-mini-mol.so.0 -o .libs/libcoot-mini-mol.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-mini-mol.so.0" && ln -s "libcoot-mini-mol.so.0.0.0" "libcoot-mini-mol.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-mini-mol.so" && ln -s "libcoot-mini-mol.so.0.0.0" "libcoot-mini-mol.so") libtool: link: ar cru .libs/libcoot-mini-mol.a mini-mol.o mini-mol-utils.o atom-quads.o libtool: link: ranlib .libs/libcoot-mini-mol.a libtool: link: ( cd ".libs" && rm -f "libcoot-mini-mol.la" && ln -s "../libcoot-mini-mol.la" "libcoot-mini-mol.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol' Making all in geometry make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cif-parse.lo -MD -MP -MF .deps/cif-parse.Tpo -c -o cif-parse.lo cif-parse.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein-geometry.lo -MD -MP -MF .deps/protein-geometry.Tpo -c -o protein-geometry.lo protein-geometry.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein-geometry-mmdb.lo -MD -MP -MF .deps/protein-geometry-mmdb.Tpo -c -o protein-geometry-mmdb.lo protein-geometry-mmdb.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT read-sbase.lo -MD -MP -MF .deps/read-sbase.Tpo -c -o read-sbase.lo read-sbase.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT energy-lib.lo -MD -MP -MF .deps/energy-lib.Tpo -c -o energy-lib.lo energy-lib.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mol-utils.lo -MD -MP -MF .deps/mol-utils.Tpo -c -o mol-utils.lo mol-utils.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dictionary-residue.lo -MD -MP -MF .deps/dictionary-residue.Tpo -c -o dictionary-residue.lo dictionary-residue.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT link.lo -MD -MP -MF .deps/link.Tpo -c -o link.lo link.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cif-parse.lo -MD -MP -MF .deps/cif-parse.Tpo -c cif-parse.cc -fPIC -DPIC -o .libs/cif-parse.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mol-utils.lo -MD -MP -MF .deps/mol-utils.Tpo -c mol-utils.cc -fPIC -DPIC -o .libs/mol-utils.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT read-sbase.lo -MD -MP -MF .deps/read-sbase.Tpo -c read-sbase.cc -fPIC -DPIC -o .libs/read-sbase.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT energy-lib.lo -MD -MP -MF .deps/energy-lib.Tpo -c energy-lib.cc -fPIC -DPIC -o .libs/energy-lib.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT link.lo -MD -MP -MF .deps/link.Tpo -c link.cc -fPIC -DPIC -o .libs/link.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dictionary-residue.lo -MD -MP -MF .deps/dictionary-residue.Tpo -c dictionary-residue.cc -fPIC -DPIC -o .libs/dictionary-residue.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein-geometry.lo -MD -MP -MF .deps/protein-geometry.Tpo -c protein-geometry.cc -fPIC -DPIC -o .libs/protein-geometry.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein-geometry-mmdb.lo -MD -MP -MF .deps/protein-geometry-mmdb.Tpo -c protein-geometry-mmdb.cc -fPIC -DPIC -o .libs/protein-geometry-mmdb.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mol-utils.lo -MD -MP -MF .deps/mol-utils.Tpo -c mol-utils.cc -o mol-utils.o >/dev/null 2>&1 mv -f .deps/mol-utils.Tpo .deps/mol-utils.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT glyco-tools.lo -MD -MP -MF .deps/glyco-tools.Tpo -c -o glyco-tools.lo glyco-tools.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT glyco-tools.lo -MD -MP -MF .deps/glyco-tools.Tpo -c glyco-tools.cc -fPIC -DPIC -o .libs/glyco-tools.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein-geometry-mmdb.lo -MD -MP -MF .deps/protein-geometry-mmdb.Tpo -c protein-geometry-mmdb.cc -o protein-geometry-mmdb.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT read-sbase.lo -MD -MP -MF .deps/read-sbase.Tpo -c read-sbase.cc -o read-sbase.o >/dev/null 2>&1 mv -f .deps/protein-geometry-mmdb.Tpo .deps/protein-geometry-mmdb.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dict-utils.lo -MD -MP -MF .deps/dict-utils.Tpo -c -o dict-utils.lo dict-utils.cc mv -f .deps/read-sbase.Tpo .deps/read-sbase.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT chem_mods.lo -MD -MP -MF .deps/chem_mods.Tpo -c -o chem_mods.lo chem_mods.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dict-utils.lo -MD -MP -MF .deps/dict-utils.Tpo -c dict-utils.cc -fPIC -DPIC -o .libs/dict-utils.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT chem_mods.lo -MD -MP -MF .deps/chem_mods.Tpo -c chem_mods.cc -fPIC -DPIC -o .libs/chem_mods.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT link.lo -MD -MP -MF .deps/link.Tpo -c link.cc -o link.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT energy-lib.lo -MD -MP -MF .deps/energy-lib.Tpo -c energy-lib.cc -o energy-lib.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT glyco-tools.lo -MD -MP -MF .deps/glyco-tools.Tpo -c glyco-tools.cc -o glyco-tools.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cif-parse.lo -MD -MP -MF .deps/cif-parse.Tpo -c cif-parse.cc -o cif-parse.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dictionary-residue.lo -MD -MP -MF .deps/dictionary-residue.Tpo -c dictionary-residue.cc -o dictionary-residue.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein-geometry.lo -MD -MP -MF .deps/protein-geometry.Tpo -c protein-geometry.cc -o protein-geometry.o >/dev/null 2>&1 mv -f .deps/link.Tpo .deps/link.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT srs-interface.lo -MD -MP -MF .deps/srs-interface.Tpo -c -o srs-interface.lo srs-interface.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT srs-interface.lo -MD -MP -MF .deps/srs-interface.Tpo -c srs-interface.cc -fPIC -DPIC -o .libs/srs-interface.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT chem_mods.lo -MD -MP -MF .deps/chem_mods.Tpo -c chem_mods.cc -o chem_mods.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT srs-interface.lo -MD -MP -MF .deps/srs-interface.Tpo -c srs-interface.cc -o srs-interface.o >/dev/null 2>&1 mv -f .deps/srs-interface.Tpo .deps/srs-interface.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein-donor-acceptors.lo -MD -MP -MF .deps/protein-donor-acceptors.Tpo -c -o protein-donor-acceptors.lo protein-donor-acceptors.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein-donor-acceptors.lo -MD -MP -MF .deps/protein-donor-acceptors.Tpo -c protein-donor-acceptors.cc -fPIC -DPIC -o .libs/protein-donor-acceptors.o mv -f .deps/energy-lib.Tpo .deps/energy-lib.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-graph.lo -MD -MP -MF .deps/lbg-graph.Tpo -c -o lbg-graph.lo lbg-graph.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-graph.lo -MD -MP -MF .deps/lbg-graph.Tpo -c lbg-graph.cc -fPIC -DPIC -o .libs/lbg-graph.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein-donor-acceptors.lo -MD -MP -MF .deps/protein-donor-acceptors.Tpo -c protein-donor-acceptors.cc -o protein-donor-acceptors.o >/dev/null 2>&1 mv -f .deps/glyco-tools.Tpo .deps/glyco-tools.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dreiding.lo -MD -MP -MF .deps/dreiding.Tpo -c -o dreiding.lo dreiding.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-graph.lo -MD -MP -MF .deps/lbg-graph.Tpo -c lbg-graph.cc -o lbg-graph.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dict-utils.lo -MD -MP -MF .deps/dict-utils.Tpo -c dict-utils.cc -o dict-utils.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dreiding.lo -MD -MP -MF .deps/dreiding.Tpo -c dreiding.cc -fPIC -DPIC -o .libs/dreiding.o mv -f .deps/protein-donor-acceptors.Tpo .deps/protein-donor-acceptors.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT main-chain.lo -MD -MP -MF .deps/main-chain.Tpo -c -o main-chain.lo main-chain.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT main-chain.lo -MD -MP -MF .deps/main-chain.Tpo -c main-chain.cc -fPIC -DPIC -o .libs/main-chain.o mv -f .deps/chem_mods.Tpo .deps/chem_mods.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT residue-and-atom-specs.lo -MD -MP -MF .deps/residue-and-atom-specs.Tpo -c -o residue-and-atom-specs.lo residue-and-atom-specs.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT main-chain.lo -MD -MP -MF .deps/main-chain.Tpo -c main-chain.cc -o main-chain.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT residue-and-atom-specs.lo -MD -MP -MF .deps/residue-and-atom-specs.Tpo -c residue-and-atom-specs.cc -fPIC -DPIC -o .libs/residue-and-atom-specs.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dreiding.lo -MD -MP -MF .deps/dreiding.Tpo -c dreiding.cc -o dreiding.o >/dev/null 2>&1 mv -f .deps/main-chain.Tpo .deps/main-chain.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mol-utils-2.lo -MD -MP -MF .deps/mol-utils-2.Tpo -c -o mol-utils-2.lo mol-utils-2.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mol-utils-2.lo -MD -MP -MF .deps/mol-utils-2.Tpo -c mol-utils-2.cc -fPIC -DPIC -o .libs/mol-utils-2.o mv -f .deps/lbg-graph.Tpo .deps/lbg-graph.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT hydrophobic.lo -MD -MP -MF .deps/hydrophobic.Tpo -c -o hydrophobic.lo hydrophobic.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT hydrophobic.lo -MD -MP -MF .deps/hydrophobic.Tpo -c hydrophobic.cc -fPIC -DPIC -o .libs/hydrophobic.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT residue-and-atom-specs.lo -MD -MP -MF .deps/residue-and-atom-specs.Tpo -c residue-and-atom-specs.cc -o residue-and-atom-specs.o >/dev/null 2>&1 mv -f .deps/cif-parse.Tpo .deps/cif-parse.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cif-parse-link.lo -MD -MP -MF .deps/cif-parse-link.Tpo -c -o cif-parse-link.lo cif-parse-link.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mol-utils-2.lo -MD -MP -MF .deps/mol-utils-2.Tpo -c mol-utils-2.cc -o mol-utils-2.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT hydrophobic.lo -MD -MP -MF .deps/hydrophobic.Tpo -c hydrophobic.cc -o hydrophobic.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cif-parse-link.lo -MD -MP -MF .deps/cif-parse-link.Tpo -c cif-parse-link.cc -fPIC -DPIC -o .libs/cif-parse-link.o mv -f .deps/dictionary-residue.Tpo .deps/dictionary-residue.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cif-parse-mon-lib.lo -MD -MP -MF .deps/cif-parse-mon-lib.Tpo -c -o cif-parse-mon-lib.lo cif-parse-mon-lib.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cif-parse-mon-lib.lo -MD -MP -MF .deps/cif-parse-mon-lib.Tpo -c cif-parse-mon-lib.cc -fPIC -DPIC -o .libs/cif-parse-mon-lib.o mv -f .deps/hydrophobic.Tpo .deps/hydrophobic.Plo g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT compare-dictionaries.o -MD -MP -MF .deps/compare-dictionaries.Tpo -c -o compare-dictionaries.o compare-dictionaries.cc mv -f .deps/mol-utils-2.Tpo .deps/mol-utils-2.Plo mv -f .deps/residue-and-atom-specs.Tpo .deps/residue-and-atom-specs.Plo g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT make-shelx-restraints.o -MD -MP -MF .deps/make-shelx-restraints.Tpo -c -o make-shelx-restraints.o make-shelx-restraints.cc g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT available-comp-id.o -MD -MP -MF .deps/available-comp-id.Tpo -c -o available-comp-id.o available-comp-id.cc mv -f .deps/dreiding.Tpo .deps/dreiding.Plo mv -f .deps/protein-geometry.Tpo .deps/protein-geometry.Plo mv -f .deps/available-comp-id.Tpo .deps/available-comp-id.Po mv -f .deps/make-shelx-restraints.Tpo .deps/make-shelx-restraints.Po mv -f .deps/compare-dictionaries.Tpo .deps/compare-dictionaries.Po libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cif-parse-mon-lib.lo -MD -MP -MF .deps/cif-parse-mon-lib.Tpo -c cif-parse-mon-lib.cc -o cif-parse-mon-lib.o >/dev/null 2>&1 mv -f .deps/dict-utils.Tpo .deps/dict-utils.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cif-parse-link.lo -MD -MP -MF .deps/cif-parse-link.Tpo -c cif-parse-link.cc -o cif-parse-link.o >/dev/null 2>&1 mv -f .deps/cif-parse-mon-lib.Tpo .deps/cif-parse-mon-lib.Plo mv -f .deps/cif-parse-link.Tpo .deps/cif-parse-link.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-geometry.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib cif-parse.lo protein-geometry.lo protein-geometry-mmdb.lo read-sbase.lo energy-lib.lo mol-utils.lo dictionary-residue.lo link.lo glyco-tools.lo dict-utils.lo chem_mods.lo srs-interface.lo protein-donor-acceptors.lo lbg-graph.lo dreiding.lo main-chain.lo residue-and-atom-specs.lo mol-utils-2.lo hydrophobic.lo cif-parse-link.lo cif-parse-mon-lib.lo ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/cif-parse.o .libs/protein-geometry.o .libs/protein-geometry-mmdb.o .libs/read-sbase.o .libs/energy-lib.o .libs/mol-utils.o .libs/dictionary-residue.o .libs/link.o .libs/glyco-tools.o .libs/dict-utils.o .libs/chem_mods.o .libs/srs-interface.o .libs/protein-donor-acceptors.o .libs/lbg-graph.o .libs/dreiding.o .libs/main-chain.o .libs/residue-and-atom-specs.o .libs/mol-utils-2.o .libs/hydrophobic.o .libs/cif-parse-link.o .libs/cif-parse-mon-lib.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ../mini-mol/.libs/libcoot-mini-mol.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-geometry.so.0 -o .libs/libcoot-geometry.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-geometry.so.0" && ln -s "libcoot-geometry.so.0.0.0" "libcoot-geometry.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-geometry.so" && ln -s "libcoot-geometry.so.0.0.0" "libcoot-geometry.so") libtool: link: ar cru .libs/libcoot-geometry.a cif-parse.o protein-geometry.o protein-geometry-mmdb.o read-sbase.o energy-lib.o mol-utils.o dictionary-residue.o link.o glyco-tools.o dict-utils.o chem_mods.o srs-interface.o protein-donor-acceptors.o lbg-graph.o dreiding.o main-chain.o residue-and-atom-specs.o mol-utils-2.o hydrophobic.o cif-parse-link.o cif-parse-mon-lib.o libtool: link: ranlib .libs/libcoot-geometry.a libtool: link: ( cd ".libs" && rm -f "libcoot-geometry.la" && ln -s "../libcoot-geometry.la" "libcoot-geometry.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o coot-compare-dictionaries compare-dictionaries.o ./libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la ../compat/libcoot-compat.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o coot-make-shelx-restraints make-shelx-restraints.o ./libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o coot-available-comp-id available-comp-id.o ./libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la libtool: link: g++ -std=gnu++11 -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o .libs/coot-compare-dictionaries compare-dictionaries.o ./.libs/libcoot-geometry.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so ../mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lm -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so ../utils/.libs/libcoot-utils.so ../compat/.libs/libcoot-compat.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib libtool: link: g++ -std=gnu++11 -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o .libs/coot-available-comp-id available-comp-id.o ./.libs/libcoot-geometry.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so ../mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lm -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so ../utils/.libs/libcoot-utils.so -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib libtool: link: g++ -std=gnu++11 -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o .libs/coot-make-shelx-restraints make-shelx-restraints.o ./.libs/libcoot-geometry.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so ../mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lm -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry' Making all in lidia-core make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-shared.lo -MD -MP -MF .deps/lbg-shared.Tpo -c -o lbg-shared.lo lbg-shared.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-molfile.lo -MD -MP -MF .deps/lbg-molfile.Tpo -c -o lbg-molfile.lo lbg-molfile.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lig-build.lo -MD -MP -MF .deps/lig-build.Tpo -c -o lig-build.lo lig-build.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rdkit-interface.lo -MD -MP -MF .deps/rdkit-interface.Tpo -c -o rdkit-interface.lo rdkit-interface.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cod-types.lo -MD -MP -MF .deps/cod-types.Tpo -c -o cod-types.lo cod-types.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atom-types.lo -MD -MP -MF .deps/atom-types.Tpo -c -o atom-types.lo atom-types.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bond-record-container-t.lo -MD -MP -MF .deps/bond-record-container-t.Tpo -c -o bond-record-container-t.lo bond-record-container-t.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cod-atom-type-t.lo -MD -MP -MF .deps/cod-atom-type-t.Tpo -c -o cod-atom-type-t.lo cod-atom-type-t.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-molfile.lo -MD -MP -MF .deps/lbg-molfile.Tpo -c lbg-molfile.cc -fPIC -DPIC -o .libs/lbg-molfile.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-shared.lo -MD -MP -MF .deps/lbg-shared.Tpo -c lbg-shared.cc -fPIC -DPIC -o .libs/lbg-shared.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atom-types.lo -MD -MP -MF .deps/atom-types.Tpo -c atom-types.cc -fPIC -DPIC -o .libs/atom-types.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bond-record-container-t.lo -MD -MP -MF .deps/bond-record-container-t.Tpo -c bond-record-container-t.cc -fPIC -DPIC -o .libs/bond-record-container-t.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lig-build.lo -MD -MP -MF .deps/lig-build.Tpo -c lig-build.cc -fPIC -DPIC -o .libs/lig-build.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cod-atom-type-t.lo -MD -MP -MF .deps/cod-atom-type-t.Tpo -c cod-atom-type-t.cc -fPIC -DPIC -o .libs/cod-atom-type-t.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cod-types.lo -MD -MP -MF .deps/cod-types.Tpo -c cod-types.cc -fPIC -DPIC -o .libs/cod-types.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rdkit-interface.lo -MD -MP -MF .deps/rdkit-interface.Tpo -c rdkit-interface.cc -fPIC -DPIC -o .libs/rdkit-interface.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-shared.lo -MD -MP -MF .deps/lbg-shared.Tpo -c lbg-shared.cc -o lbg-shared.o >/dev/null 2>&1 mv -f .deps/lbg-shared.Tpo .deps/lbg-shared.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cod-atom-types.lo -MD -MP -MF .deps/cod-atom-types.Tpo -c -o cod-atom-types.lo cod-atom-types.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cod-atom-types.lo -MD -MP -MF .deps/cod-atom-types.Tpo -c cod-atom-types.cc -fPIC -DPIC -o .libs/cod-atom-types.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lig-build.lo -MD -MP -MF .deps/lig-build.Tpo -c lig-build.cc -o lig-build.o >/dev/null 2>&1 mv -f .deps/lig-build.Tpo .deps/lig-build.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bond-table-record-t.lo -MD -MP -MF .deps/bond-table-record-t.Tpo -c -o bond-table-record-t.lo bond-table-record-t.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bond-table-record-t.lo -MD -MP -MF .deps/bond-table-record-t.Tpo -c bond-table-record-t.cc -fPIC -DPIC -o .libs/bond-table-record-t.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-molfile.lo -MD -MP -MF .deps/lbg-molfile.Tpo -c lbg-molfile.cc -o lbg-molfile.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cod-types.lo -MD -MP -MF .deps/cod-types.Tpo -c cod-types.cc -o cod-types.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bond-table-record-t.lo -MD -MP -MF .deps/bond-table-record-t.Tpo -c bond-table-record-t.cc -o bond-table-record-t.o >/dev/null 2>&1 mv -f .deps/lbg-molfile.Tpo .deps/lbg-molfile.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT chemical-feature-clusters.lo -MD -MP -MF .deps/chemical-feature-clusters.Tpo -c -o chemical-feature-clusters.lo chemical-feature-clusters.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT chemical-feature-clusters.lo -MD -MP -MF .deps/chemical-feature-clusters.Tpo -c chemical-feature-clusters.cc -fPIC -DPIC -o .libs/chemical-feature-clusters.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cod-atom-type-t.lo -MD -MP -MF .deps/cod-atom-type-t.Tpo -c cod-atom-type-t.cc -o cod-atom-type-t.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atom-types.lo -MD -MP -MF .deps/atom-types.Tpo -c atom-types.cc -o atom-types.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cod-atom-types.lo -MD -MP -MF .deps/cod-atom-types.Tpo -c cod-atom-types.cc -o cod-atom-types.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bond-record-container-t.lo -MD -MP -MF .deps/bond-record-container-t.Tpo -c bond-record-container-t.cc -o bond-record-container-t.o >/dev/null 2>&1 mv -f .deps/bond-table-record-t.Tpo .deps/bond-table-record-t.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT get-residue.lo -MD -MP -MF .deps/get-residue.Tpo -c -o get-residue.lo get-residue.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT get-residue.lo -MD -MP -MF .deps/get-residue.Tpo -c get-residue.cc -fPIC -DPIC -o .libs/get-residue.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT get-residue.lo -MD -MP -MF .deps/get-residue.Tpo -c get-residue.cc -o get-residue.o >/dev/null 2>&1 mv -f .deps/get-residue.Tpo .deps/get-residue.Plo mv -f .deps/cod-types.Tpo .deps/cod-types.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rdkit-interface.lo -MD -MP -MF .deps/rdkit-interface.Tpo -c rdkit-interface.cc -o rdkit-interface.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT chemical-feature-clusters.lo -MD -MP -MF .deps/chemical-feature-clusters.Tpo -c chemical-feature-clusters.cc -o chemical-feature-clusters.o >/dev/null 2>&1 mv -f .deps/cod-atom-type-t.Tpo .deps/cod-atom-type-t.Plo mv -f .deps/atom-types.Tpo .deps/atom-types.Plo mv -f .deps/cod-atom-types.Tpo .deps/cod-atom-types.Plo mv -f .deps/bond-record-container-t.Tpo .deps/bond-record-container-t.Plo mv -f .deps/chemical-feature-clusters.Tpo .deps/chemical-feature-clusters.Plo mv -f .deps/rdkit-interface.Tpo .deps/rdkit-interface.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-lidia-core.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib lbg-shared.lo lbg-molfile.lo lig-build.lo rdkit-interface.lo cod-types.lo atom-types.lo bond-record-container-t.lo cod-atom-type-t.lo cod-atom-types.lo bond-table-record-t.lo chemical-feature-clusters.lo get-residue.lo ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lsqlite3 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/lbg-shared.o .libs/lbg-molfile.o .libs/lig-build.o .libs/rdkit-interface.o .libs/cod-types.o .libs/atom-types.o .libs/bond-record-container-t.o .libs/cod-atom-type-t.o .libs/cod-atom-types.o .libs/bond-table-record-t.o .libs/chemical-feature-clusters.o .libs/get-residue.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ../geometry/.libs/libcoot-geometry.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lutil /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz -ldl -lpthread -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-export-dynamic -Wl,-soname -Wl,libcoot-lidia-core.so.0 -o .libs/libcoot-lidia-core.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-lidia-core.so.0" && ln -s "libcoot-lidia-core.so.0.0.0" "libcoot-lidia-core.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-lidia-core.so" && ln -s "libcoot-lidia-core.so.0.0.0" "libcoot-lidia-core.so") libtool: link: ar cru .libs/libcoot-lidia-core.a lbg-shared.o lbg-molfile.o lig-build.o rdkit-interface.o cod-types.o atom-types.o bond-record-container-t.o cod-atom-type-t.o cod-atom-types.o bond-table-record-t.o chemical-feature-clusters.o get-residue.o libtool: link: ranlib .libs/libcoot-lidia-core.a libtool: link: ( cd ".libs" && rm -f "libcoot-lidia-core.la" && ln -s "../libcoot-lidia-core.la" "libcoot-lidia-core.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core' Making all in coot-utils make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-coord-utils.lo -MD -MP -MF .deps/coot-coord-utils.Tpo -c -o coot-coord-utils.lo coot-coord-utils.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-coord-utils-nucleotides.lo -MD -MP -MF .deps/coot-coord-utils-nucleotides.Tpo -c -o coot-coord-utils-nucleotides.lo coot-coord-utils-nucleotides.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-rama.lo -MD -MP -MF .deps/coot-rama.Tpo -c -o coot-rama.lo coot-rama.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-h-bonds.lo -MD -MP -MF .deps/coot-h-bonds.Tpo -c -o coot-h-bonds.lo coot-h-bonds.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT hole.lo -MD -MP -MF .deps/hole.Tpo -c -o hole.lo hole.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT read-sm-cif.lo -MD -MP -MF .deps/read-sm-cif.Tpo -c -o read-sm-cif.lo read-sm-cif.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bonded-pairs.lo -MD -MP -MF .deps/bonded-pairs.Tpo -c -o bonded-pairs.lo bonded-pairs.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT helix-analysis.lo -MD -MP -MF .deps/helix-analysis.Tpo -c -o helix-analysis.lo helix-analysis.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT read-sm-cif.lo -MD -MP -MF .deps/read-sm-cif.Tpo -c read-sm-cif.cc -fPIC -DPIC -o .libs/read-sm-cif.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-coord-utils.lo -MD -MP -MF .deps/coot-coord-utils.Tpo -c coot-coord-utils.cc -fPIC -DPIC -o .libs/coot-coord-utils.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT hole.lo -MD -MP -MF .deps/hole.Tpo -c hole.cc -fPIC -DPIC -o .libs/hole.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bonded-pairs.lo -MD -MP -MF .deps/bonded-pairs.Tpo -c bonded-pairs.cc -fPIC -DPIC -o .libs/bonded-pairs.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-rama.lo -MD -MP -MF .deps/coot-rama.Tpo -c coot-rama.cc -fPIC -DPIC -o .libs/coot-rama.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-h-bonds.lo -MD -MP -MF .deps/coot-h-bonds.Tpo -c coot-h-bonds.cc -fPIC -DPIC -o .libs/coot-h-bonds.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-coord-utils-nucleotides.lo -MD -MP -MF .deps/coot-coord-utils-nucleotides.Tpo -c coot-coord-utils-nucleotides.cc -fPIC -DPIC -o .libs/coot-coord-utils-nucleotides.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT helix-analysis.lo -MD -MP -MF .deps/helix-analysis.Tpo -c helix-analysis.cc -fPIC -DPIC -o .libs/helix-analysis.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT helix-analysis.lo -MD -MP -MF .deps/helix-analysis.Tpo -c helix-analysis.cc -o helix-analysis.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-rama.lo -MD -MP -MF .deps/coot-rama.Tpo -c coot-rama.cc -o coot-rama.o >/dev/null 2>&1 mv -f .deps/helix-analysis.Tpo .deps/helix-analysis.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT elastic.lo -MD -MP -MF .deps/elastic.Tpo -c -o elastic.lo elastic.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT elastic.lo -MD -MP -MF .deps/elastic.Tpo -c elastic.cc -fPIC -DPIC -o .libs/elastic.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bonded-pairs.lo -MD -MP -MF .deps/bonded-pairs.Tpo -c bonded-pairs.cc -o bonded-pairs.o >/dev/null 2>&1 mv -f .deps/coot-rama.Tpo .deps/coot-rama.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT glyco-torsions.lo -MD -MP -MF .deps/glyco-torsions.Tpo -c -o glyco-torsions.lo glyco-torsions.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-coord-utils-nucleotides.lo -MD -MP -MF .deps/coot-coord-utils-nucleotides.Tpo -c coot-coord-utils-nucleotides.cc -o coot-coord-utils-nucleotides.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT glyco-torsions.lo -MD -MP -MF .deps/glyco-torsions.Tpo -c glyco-torsions.cc -fPIC -DPIC -o .libs/glyco-torsions.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT elastic.lo -MD -MP -MF .deps/elastic.Tpo -c elastic.cc -o elastic.o >/dev/null 2>&1 mv -f .deps/elastic.Tpo .deps/elastic.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-least-squares.lo -MD -MP -MF .deps/coot-least-squares.Tpo -c -o coot-least-squares.lo coot-least-squares.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-least-squares.lo -MD -MP -MF .deps/coot-least-squares.Tpo -c coot-least-squares.cc -fPIC -DPIC -o .libs/coot-least-squares.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT hole.lo -MD -MP -MF .deps/hole.Tpo -c hole.cc -o hole.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-least-squares.lo -MD -MP -MF .deps/coot-least-squares.Tpo -c coot-least-squares.cc -o coot-least-squares.o >/dev/null 2>&1 mv -f .deps/coot-least-squares.Tpo .deps/coot-least-squares.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atom-overlaps.lo -MD -MP -MF .deps/atom-overlaps.Tpo -c -o atom-overlaps.lo atom-overlaps.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atom-overlaps.lo -MD -MP -MF .deps/atom-overlaps.Tpo -c atom-overlaps.cc -fPIC -DPIC -o .libs/atom-overlaps.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT read-sm-cif.lo -MD -MP -MF .deps/read-sm-cif.Tpo -c read-sm-cif.cc -o read-sm-cif.o >/dev/null 2>&1 mv -f .deps/bonded-pairs.Tpo .deps/bonded-pairs.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT reduce.lo -MD -MP -MF .deps/reduce.Tpo -c -o reduce.lo reduce.cc mv -f .deps/coot-coord-utils-nucleotides.Tpo .deps/coot-coord-utils-nucleotides.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atom-selection-container.lo -MD -MP -MF .deps/atom-selection-container.Tpo -c -o atom-selection-container.lo atom-selection-container.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atom-selection-container.lo -MD -MP -MF .deps/atom-selection-container.Tpo -c atom-selection-container.cc -fPIC -DPIC -o .libs/atom-selection-container.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT reduce.lo -MD -MP -MF .deps/reduce.Tpo -c reduce.cc -fPIC -DPIC -o .libs/reduce.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-h-bonds.lo -MD -MP -MF .deps/coot-h-bonds.Tpo -c coot-h-bonds.cc -o coot-h-bonds.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT glyco-torsions.lo -MD -MP -MF .deps/glyco-torsions.Tpo -c glyco-torsions.cc -o glyco-torsions.o >/dev/null 2>&1 mv -f .deps/hole.Tpo .deps/hole.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT contact-info.lo -MD -MP -MF .deps/contact-info.Tpo -c -o contact-info.lo contact-info.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT contact-info.lo -MD -MP -MF .deps/contact-info.Tpo -c contact-info.cc -fPIC -DPIC -o .libs/contact-info.o mv -f .deps/read-sm-cif.Tpo .deps/read-sm-cif.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-shelx-ins.lo -MD -MP -MF .deps/coot-shelx-ins.Tpo -c -o coot-shelx-ins.lo coot-shelx-ins.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-shelx-ins.lo -MD -MP -MF .deps/coot-shelx-ins.Tpo -c coot-shelx-ins.cc -fPIC -DPIC -o .libs/coot-shelx-ins.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atom-selection-container.lo -MD -MP -MF .deps/atom-selection-container.Tpo -c atom-selection-container.cc -o atom-selection-container.o >/dev/null 2>&1 mv -f .deps/coot-h-bonds.Tpo .deps/coot-h-bonds.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT secondary-structure-headers.lo -MD -MP -MF .deps/secondary-structure-headers.Tpo -c -o secondary-structure-headers.lo secondary-structure-headers.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT secondary-structure-headers.lo -MD -MP -MF .deps/secondary-structure-headers.Tpo -c secondary-structure-headers.cc -fPIC -DPIC -o .libs/secondary-structure-headers.o mv -f .deps/glyco-torsions.Tpo .deps/glyco-torsions.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT plane-utils.lo -MD -MP -MF .deps/plane-utils.Tpo -c -o plane-utils.lo plane-utils.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT plane-utils.lo -MD -MP -MF .deps/plane-utils.Tpo -c plane-utils.cc -fPIC -DPIC -o .libs/plane-utils.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT reduce.lo -MD -MP -MF .deps/reduce.Tpo -c reduce.cc -o reduce.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT secondary-structure-headers.lo -MD -MP -MF .deps/secondary-structure-headers.Tpo -c secondary-structure-headers.cc -o secondary-structure-headers.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT plane-utils.lo -MD -MP -MF .deps/plane-utils.Tpo -c plane-utils.cc -o plane-utils.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT contact-info.lo -MD -MP -MF .deps/contact-info.Tpo -c contact-info.cc -o contact-info.o >/dev/null 2>&1 mv -f .deps/atom-selection-container.Tpo .deps/atom-selection-container.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-beta-deviations.lo -MD -MP -MF .deps/c-beta-deviations.Tpo -c -o c-beta-deviations.lo c-beta-deviations.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-beta-deviations.lo -MD -MP -MF .deps/c-beta-deviations.Tpo -c c-beta-deviations.cc -fPIC -DPIC -o .libs/c-beta-deviations.o mv -f .deps/plane-utils.Tpo .deps/plane-utils.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lidia-core-functions.lo -MD -MP -MF .deps/lidia-core-functions.Tpo -c -o lidia-core-functions.lo lidia-core-functions.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lidia-core-functions.lo -MD -MP -MF .deps/lidia-core-functions.Tpo -c lidia-core-functions.cc -fPIC -DPIC -o .libs/lidia-core-functions.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-shelx-ins.lo -MD -MP -MF .deps/coot-shelx-ins.Tpo -c coot-shelx-ins.cc -o coot-shelx-ins.o >/dev/null 2>&1 mv -f .deps/secondary-structure-headers.Tpo .deps/secondary-structure-headers.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atom-tools.lo -MD -MP -MF .deps/atom-tools.Tpo -c -o atom-tools.lo atom-tools.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atom-tools.lo -MD -MP -MF .deps/atom-tools.Tpo -c atom-tools.cc -fPIC -DPIC -o .libs/atom-tools.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-coord-utils.lo -MD -MP -MF .deps/coot-coord-utils.Tpo -c coot-coord-utils.cc -o coot-coord-utils.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-beta-deviations.lo -MD -MP -MF .deps/c-beta-deviations.Tpo -c c-beta-deviations.cc -o c-beta-deviations.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atom-overlaps.lo -MD -MP -MF .deps/atom-overlaps.Tpo -c atom-overlaps.cc -o atom-overlaps.o >/dev/null 2>&1 mv -f .deps/c-beta-deviations.Tpo .deps/c-beta-deviations.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bonded-atoms.lo -MD -MP -MF .deps/bonded-atoms.Tpo -c -o bonded-atoms.lo bonded-atoms.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bonded-atoms.lo -MD -MP -MF .deps/bonded-atoms.Tpo -c bonded-atoms.cc -fPIC -DPIC -o .libs/bonded-atoms.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atom-tools.lo -MD -MP -MF .deps/atom-tools.Tpo -c atom-tools.cc -o atom-tools.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bonded-atoms.lo -MD -MP -MF .deps/bonded-atoms.Tpo -c bonded-atoms.cc -o bonded-atoms.o >/dev/null 2>&1 mv -f .deps/contact-info.Tpo .deps/contact-info.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bricks.lo -MD -MP -MF .deps/bricks.Tpo -c -o bricks.lo bricks.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bricks.lo -MD -MP -MF .deps/bricks.Tpo -c bricks.cc -fPIC -DPIC -o .libs/bricks.o mv -f .deps/bonded-atoms.Tpo .deps/bonded-atoms.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT helix-like.lo -MD -MP -MF .deps/helix-like.Tpo -c -o helix-like.lo helix-like.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT helix-like.lo -MD -MP -MF .deps/helix-like.Tpo -c helix-like.cc -fPIC -DPIC -o .libs/helix-like.o mv -f .deps/reduce.Tpo .deps/reduce.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT merge-atom-selections.lo -MD -MP -MF .deps/merge-atom-selections.Tpo -c -o merge-atom-selections.lo merge-atom-selections.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT merge-atom-selections.lo -MD -MP -MF .deps/merge-atom-selections.Tpo -c merge-atom-selections.cc -fPIC -DPIC -o .libs/merge-atom-selections.o mv -f .deps/coot-shelx-ins.Tpo .deps/coot-shelx-ins.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT contacts-by-bricks.lo -MD -MP -MF .deps/contacts-by-bricks.Tpo -c -o contacts-by-bricks.lo contacts-by-bricks.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT helix-like.lo -MD -MP -MF .deps/helix-like.Tpo -c helix-like.cc -o helix-like.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bricks.lo -MD -MP -MF .deps/bricks.Tpo -c bricks.cc -o bricks.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT contacts-by-bricks.lo -MD -MP -MF .deps/contacts-by-bricks.Tpo -c contacts-by-bricks.cc -fPIC -DPIC -o .libs/contacts-by-bricks.o mv -f .deps/atom-tools.Tpo .deps/atom-tools.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT stack-and-pair.lo -MD -MP -MF .deps/stack-and-pair.Tpo -c -o stack-and-pair.lo stack-and-pair.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT stack-and-pair.lo -MD -MP -MF .deps/stack-and-pair.Tpo -c stack-and-pair.cc -fPIC -DPIC -o .libs/stack-and-pair.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lidia-core-functions.lo -MD -MP -MF .deps/lidia-core-functions.Tpo -c lidia-core-functions.cc -o lidia-core-functions.o >/dev/null 2>&1 mv -f .deps/helix-like.Tpo .deps/helix-like.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT fast-eigens.lo -MD -MP -MF .deps/fast-eigens.Tpo -c -o fast-eigens.lo fast-eigens.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT fast-eigens.lo -MD -MP -MF .deps/fast-eigens.Tpo -c fast-eigens.cc -fPIC -DPIC -o .libs/fast-eigens.o mv -f .deps/bricks.Tpo .deps/bricks.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT strand-fragments.lo -MD -MP -MF .deps/strand-fragments.Tpo -c -o strand-fragments.lo strand-fragments.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT strand-fragments.lo -MD -MP -MF .deps/strand-fragments.Tpo -c strand-fragments.cc -fPIC -DPIC -o .libs/strand-fragments.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT fast-eigens.lo -MD -MP -MF .deps/fast-eigens.Tpo -c fast-eigens.cc -o fast-eigens.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT contacts-by-bricks.lo -MD -MP -MF .deps/contacts-by-bricks.Tpo -c contacts-by-bricks.cc -o contacts-by-bricks.o >/dev/null 2>&1 mv -f .deps/fast-eigens.Tpo .deps/fast-eigens.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT sfcalc-genmap.lo -MD -MP -MF .deps/sfcalc-genmap.Tpo -c -o sfcalc-genmap.lo sfcalc-genmap.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT strand-fragments.lo -MD -MP -MF .deps/strand-fragments.Tpo -c strand-fragments.cc -o strand-fragments.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT sfcalc-genmap.lo -MD -MP -MF .deps/sfcalc-genmap.Tpo -c sfcalc-genmap.cc -fPIC -DPIC -o .libs/sfcalc-genmap.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT merge-atom-selections.lo -MD -MP -MF .deps/merge-atom-selections.Tpo -c merge-atom-selections.cc -o merge-atom-selections.o >/dev/null 2>&1 mv -f .deps/contacts-by-bricks.Tpo .deps/contacts-by-bricks.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cablam-markup.lo -MD -MP -MF .deps/cablam-markup.Tpo -c -o cablam-markup.lo cablam-markup.cc mv -f .deps/strand-fragments.Tpo .deps/strand-fragments.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot_shiftfield.lo -MD -MP -MF .deps/coot_shiftfield.Tpo -c -o coot_shiftfield.lo coot_shiftfield.cpp libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cablam-markup.lo -MD -MP -MF .deps/cablam-markup.Tpo -c cablam-markup.cc -fPIC -DPIC -o .libs/cablam-markup.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot_shiftfield.lo -MD -MP -MF .deps/coot_shiftfield.Tpo -c coot_shiftfield.cpp -fPIC -DPIC -o .libs/coot_shiftfield.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT stack-and-pair.lo -MD -MP -MF .deps/stack-and-pair.Tpo -c stack-and-pair.cc -o stack-and-pair.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cablam-markup.lo -MD -MP -MF .deps/cablam-markup.Tpo -c cablam-markup.cc -o cablam-markup.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT sfcalc-genmap.lo -MD -MP -MF .deps/sfcalc-genmap.Tpo -c sfcalc-genmap.cc -o sfcalc-genmap.o >/dev/null 2>&1 mv -f .deps/merge-atom-selections.Tpo .deps/merge-atom-selections.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT shiftfield.lo -MD -MP -MF .deps/shiftfield.Tpo -c -o shiftfield.lo shiftfield.cpp libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT shiftfield.lo -MD -MP -MF .deps/shiftfield.Tpo -c shiftfield.cpp -fPIC -DPIC -o .libs/shiftfield.o mv -f .deps/cablam-markup.Tpo .deps/cablam-markup.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT slurp-map.lo -MD -MP -MF .deps/slurp-map.Tpo -c -o slurp-map.lo slurp-map.cc mv -f .deps/atom-overlaps.Tpo .deps/atom-overlaps.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT fib-sphere.lo -MD -MP -MF .deps/fib-sphere.Tpo -c -o fib-sphere.lo fib-sphere.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT slurp-map.lo -MD -MP -MF .deps/slurp-map.Tpo -c slurp-map.cc -fPIC -DPIC -o .libs/slurp-map.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT fib-sphere.lo -MD -MP -MF .deps/fib-sphere.Tpo -c fib-sphere.cc -fPIC -DPIC -o .libs/fib-sphere.o mv -f .deps/lidia-core-functions.Tpo .deps/lidia-core-functions.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT polar-atoms.lo -MD -MP -MF .deps/polar-atoms.Tpo -c -o polar-atoms.lo polar-atoms.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot_shiftfield.lo -MD -MP -MF .deps/coot_shiftfield.Tpo -c coot_shiftfield.cpp -o coot_shiftfield.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT polar-atoms.lo -MD -MP -MF .deps/polar-atoms.Tpo -c polar-atoms.cc -fPIC -DPIC -o .libs/polar-atoms.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT fib-sphere.lo -MD -MP -MF .deps/fib-sphere.Tpo -c fib-sphere.cc -o fib-sphere.o >/dev/null 2>&1 mv -f .deps/stack-and-pair.Tpo .deps/stack-and-pair.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT merge-molecules.lo -MD -MP -MF .deps/merge-molecules.Tpo -c -o merge-molecules.lo merge-molecules.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT merge-molecules.lo -MD -MP -MF .deps/merge-molecules.Tpo -c merge-molecules.cc -fPIC -DPIC -o .libs/merge-molecules.o mv -f .deps/fib-sphere.Tpo .deps/fib-sphere.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT fragment-container.lo -MD -MP -MF .deps/fragment-container.Tpo -c -o fragment-container.lo fragment-container.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT fragment-container.lo -MD -MP -MF .deps/fragment-container.Tpo -c fragment-container.cc -fPIC -DPIC -o .libs/fragment-container.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT merge-molecules.lo -MD -MP -MF .deps/merge-molecules.Tpo -c merge-molecules.cc -o merge-molecules.o >/dev/null 2>&1 mv -f .deps/sfcalc-genmap.Tpo .deps/sfcalc-genmap.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mutate.lo -MD -MP -MF .deps/mutate.Tpo -c -o mutate.lo mutate.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mutate.lo -MD -MP -MF .deps/mutate.Tpo -c mutate.cc -fPIC -DPIC -o .libs/mutate.o mv -f .deps/merge-molecules.Tpo .deps/merge-molecules.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT merge-C-and-N-terminii.lo -MD -MP -MF .deps/merge-C-and-N-terminii.Tpo -c -o merge-C-and-N-terminii.lo merge-C-and-N-terminii.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT merge-C-and-N-terminii.lo -MD -MP -MF .deps/merge-C-and-N-terminii.Tpo -c merge-C-and-N-terminii.cc -fPIC -DPIC -o .libs/merge-C-and-N-terminii.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT fragment-container.lo -MD -MP -MF .deps/fragment-container.Tpo -c fragment-container.cc -o fragment-container.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT polar-atoms.lo -MD -MP -MF .deps/polar-atoms.Tpo -c polar-atoms.cc -o polar-atoms.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT slurp-map.lo -MD -MP -MF .deps/slurp-map.Tpo -c slurp-map.cc -o slurp-map.o >/dev/null 2>&1 mv -f .deps/coot-coord-utils.Tpo .deps/coot-coord-utils.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-coord-extras.lo -MD -MP -MF .deps/coot-coord-extras.Tpo -c -o coot-coord-extras.lo coot-coord-extras.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-coord-extras.lo -MD -MP -MF .deps/coot-coord-extras.Tpo -c coot-coord-extras.cc -fPIC -DPIC -o .libs/coot-coord-extras.o mv -f .deps/fragment-container.Tpo .deps/fragment-container.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-coord-lsq.lo -MD -MP -MF .deps/coot-coord-lsq.Tpo -c -o coot-coord-lsq.lo coot-coord-lsq.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT merge-C-and-N-terminii.lo -MD -MP -MF .deps/merge-C-and-N-terminii.Tpo -c merge-C-and-N-terminii.cc -o merge-C-and-N-terminii.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-coord-lsq.lo -MD -MP -MF .deps/coot-coord-lsq.Tpo -c coot-coord-lsq.cc -fPIC -DPIC -o .libs/coot-coord-lsq.o mv -f .deps/coot_shiftfield.Tpo .deps/coot_shiftfield.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-tree-extras.lo -MD -MP -MF .deps/coot-tree-extras.Tpo -c -o coot-tree-extras.lo coot-tree-extras.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-tree-extras.lo -MD -MP -MF .deps/coot-tree-extras.Tpo -c coot-tree-extras.cc -fPIC -DPIC -o .libs/coot-tree-extras.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT shiftfield.lo -MD -MP -MF .deps/shiftfield.Tpo -c shiftfield.cpp -o shiftfield.o >/dev/null 2>&1 mv -f .deps/polar-atoms.Tpo .deps/polar-atoms.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT water-coordination.lo -MD -MP -MF .deps/water-coordination.Tpo -c -o water-coordination.lo water-coordination.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT water-coordination.lo -MD -MP -MF .deps/water-coordination.Tpo -c water-coordination.cc -fPIC -DPIC -o .libs/water-coordination.o mv -f .deps/merge-C-and-N-terminii.Tpo .deps/merge-C-and-N-terminii.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lsq-improve.lo -MD -MP -MF .deps/lsq-improve.Tpo -c -o lsq-improve.lo lsq-improve.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lsq-improve.lo -MD -MP -MF .deps/lsq-improve.Tpo -c lsq-improve.cc -fPIC -DPIC -o .libs/lsq-improve.o mv -f .deps/slurp-map.Tpo .deps/slurp-map.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-coord-utils-glyco.lo -MD -MP -MF .deps/coot-coord-utils-glyco.Tpo -c -o coot-coord-utils-glyco.lo coot-coord-utils-glyco.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-coord-lsq.lo -MD -MP -MF .deps/coot-coord-lsq.Tpo -c coot-coord-lsq.cc -o coot-coord-lsq.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-coord-utils-glyco.lo -MD -MP -MF .deps/coot-coord-utils-glyco.Tpo -c coot-coord-utils-glyco.cc -fPIC -DPIC -o .libs/coot-coord-utils-glyco.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT water-coordination.lo -MD -MP -MF .deps/water-coordination.Tpo -c water-coordination.cc -o water-coordination.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mutate.lo -MD -MP -MF .deps/mutate.Tpo -c mutate.cc -o mutate.o >/dev/null 2>&1 mv -f .deps/coot-coord-lsq.Tpo .deps/coot-coord-lsq.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT jed-flip.lo -MD -MP -MF .deps/jed-flip.Tpo -c -o jed-flip.lo jed-flip.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT jed-flip.lo -MD -MP -MF .deps/jed-flip.Tpo -c jed-flip.cc -fPIC -DPIC -o .libs/jed-flip.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lsq-improve.lo -MD -MP -MF .deps/lsq-improve.Tpo -c lsq-improve.cc -o lsq-improve.o >/dev/null 2>&1 mv -f .deps/shiftfield.Tpo .deps/shiftfield.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-map-utils.lo -MD -MP -MF .deps/coot-map-utils.Tpo -c -o coot-map-utils.lo coot-map-utils.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-tree-extras.lo -MD -MP -MF .deps/coot-tree-extras.Tpo -c coot-tree-extras.cc -o coot-tree-extras.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-map-utils.lo -MD -MP -MF .deps/coot-map-utils.Tpo -c coot-map-utils.cc -fPIC -DPIC -o .libs/coot-map-utils.o mv -f .deps/water-coordination.Tpo .deps/water-coordination.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT peak-search.lo -MD -MP -MF .deps/peak-search.Tpo -c -o peak-search.lo peak-search.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT peak-search.lo -MD -MP -MF .deps/peak-search.Tpo -c peak-search.cc -fPIC -DPIC -o .libs/peak-search.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-coord-extras.lo -MD -MP -MF .deps/coot-coord-extras.Tpo -c coot-coord-extras.cc -o coot-coord-extras.o >/dev/null 2>&1 mv -f .deps/lsq-improve.Tpo .deps/lsq-improve.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT peak-search-from-list.lo -MD -MP -MF .deps/peak-search-from-list.Tpo -c -o peak-search-from-list.lo peak-search-from-list.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-coord-utils-glyco.lo -MD -MP -MF .deps/coot-coord-utils-glyco.Tpo -c coot-coord-utils-glyco.cc -o coot-coord-utils-glyco.o >/dev/null 2>&1 mv -f .deps/mutate.Tpo .deps/mutate.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT trim.lo -MD -MP -MF .deps/trim.Tpo -c -o trim.lo trim.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT peak-search-from-list.lo -MD -MP -MF .deps/peak-search-from-list.Tpo -c peak-search-from-list.cc -fPIC -DPIC -o .libs/peak-search-from-list.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT trim.lo -MD -MP -MF .deps/trim.Tpo -c trim.cc -fPIC -DPIC -o .libs/trim.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT jed-flip.lo -MD -MP -MF .deps/jed-flip.Tpo -c jed-flip.cc -o jed-flip.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT peak-search-from-list.lo -MD -MP -MF .deps/peak-search-from-list.Tpo -c peak-search-from-list.cc -o peak-search-from-list.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT trim.lo -MD -MP -MF .deps/trim.Tpo -c trim.cc -o trim.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT peak-search.lo -MD -MP -MF .deps/peak-search.Tpo -c peak-search.cc -o peak-search.o >/dev/null 2>&1 mv -f .deps/peak-search-from-list.Tpo .deps/peak-search-from-list.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT xmap-stats.lo -MD -MP -MF .deps/xmap-stats.Tpo -c -o xmap-stats.lo xmap-stats.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT xmap-stats.lo -MD -MP -MF .deps/xmap-stats.Tpo -c xmap-stats.cc -fPIC -DPIC -o .libs/xmap-stats.o mv -f .deps/trim.Tpo .deps/trim.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT maps-spherical.lo -MD -MP -MF .deps/maps-spherical.Tpo -c -o maps-spherical.lo maps-spherical.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT maps-spherical.lo -MD -MP -MF .deps/maps-spherical.Tpo -c maps-spherical.cc -fPIC -DPIC -o .libs/maps-spherical.o mv -f .deps/coot-tree-extras.Tpo .deps/coot-tree-extras.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pepflip-using-difference-map.lo -MD -MP -MF .deps/pepflip-using-difference-map.Tpo -c -o pepflip-using-difference-map.lo pepflip-using-difference-map.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pepflip-using-difference-map.lo -MD -MP -MF .deps/pepflip-using-difference-map.Tpo -c pepflip-using-difference-map.cc -fPIC -DPIC -o .libs/pepflip-using-difference-map.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT xmap-stats.lo -MD -MP -MF .deps/xmap-stats.Tpo -c xmap-stats.cc -o xmap-stats.o >/dev/null 2>&1 mv -f .deps/jed-flip.Tpo .deps/jed-flip.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-map-heavy.lo -MD -MP -MF .deps/coot-map-heavy.Tpo -c -o coot-map-heavy.lo coot-map-heavy.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-map-heavy.lo -MD -MP -MF .deps/coot-map-heavy.Tpo -c coot-map-heavy.cc -fPIC -DPIC -o .libs/coot-map-heavy.o mv -f .deps/xmap-stats.Tpo .deps/xmap-stats.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-fffear.lo -MD -MP -MF .deps/coot-fffear.Tpo -c -o coot-fffear.lo coot-fffear.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-fffear.lo -MD -MP -MF .deps/coot-fffear.Tpo -c coot-fffear.cc -fPIC -DPIC -o .libs/coot-fffear.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pepflip-using-difference-map.lo -MD -MP -MF .deps/pepflip-using-difference-map.Tpo -c pepflip-using-difference-map.cc -o pepflip-using-difference-map.o >/dev/null 2>&1 mv -f .deps/peak-search.Tpo .deps/peak-search.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT spherical-harmonics.lo -MD -MP -MF .deps/spherical-harmonics.Tpo -c -o spherical-harmonics.lo spherical-harmonics.cc mv -f .deps/coot-coord-utils-glyco.Tpo .deps/coot-coord-utils-glyco.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT segmap.lo -MD -MP -MF .deps/segmap.Tpo -c -o segmap.lo segmap.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT spherical-harmonics.lo -MD -MP -MF .deps/spherical-harmonics.Tpo -c spherical-harmonics.cc -fPIC -DPIC -o .libs/spherical-harmonics.o mv -f .deps/coot-coord-extras.Tpo .deps/coot-coord-extras.Plo g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mmrrcc.o -MD -MP -MF .deps/mmrrcc.Tpo -c -o mmrrcc.o mmrrcc.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT segmap.lo -MD -MP -MF .deps/segmap.Tpo -c segmap.cc -fPIC -DPIC -o .libs/segmap.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT spherical-harmonics.lo -MD -MP -MF .deps/spherical-harmonics.Tpo -c spherical-harmonics.cc -o spherical-harmonics.o >/dev/null 2>&1 mv -f .deps/pepflip-using-difference-map.Tpo .deps/pepflip-using-difference-map.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-coord-utils.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib coot-coord-utils.lo coot-coord-utils-nucleotides.lo coot-rama.lo coot-h-bonds.lo hole.lo read-sm-cif.lo bonded-pairs.lo helix-analysis.lo elastic.lo glyco-torsions.lo coot-least-squares.lo atom-overlaps.lo reduce.lo atom-selection-container.lo contact-info.lo coot-shelx-ins.lo secondary-structure-headers.lo plane-utils.lo c-beta-deviations.lo lidia-core-functions.lo atom-tools.lo bonded-atoms.lo bricks.lo helix-like.lo merge-atom-selections.lo contacts-by-bricks.lo stack-and-pair.lo fast-eigens.lo strand-fragments.lo sfcalc-genmap.lo cablam-markup.lo coot_shiftfield.lo shiftfield.lo slurp-map.lo fib-sphere.lo polar-atoms.lo merge-molecules.lo fragment-container.lo mutate.lo merge-C-and-N-terminii.lo ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil mv -f .deps/spherical-harmonics.Tpo .deps/spherical-harmonics.Plo mv -f .deps/mmrrcc.Tpo .deps/mmrrcc.Po libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT maps-spherical.lo -MD -MP -MF .deps/maps-spherical.Tpo -c maps-spherical.cc -o maps-spherical.o >/dev/null 2>&1 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/coot-coord-utils.o .libs/coot-coord-utils-nucleotides.o .libs/coot-rama.o .libs/coot-h-bonds.o .libs/hole.o .libs/read-sm-cif.o .libs/bonded-pairs.o .libs/helix-analysis.o .libs/elastic.o .libs/glyco-torsions.o .libs/coot-least-squares.o .libs/atom-overlaps.o .libs/reduce.o .libs/atom-selection-container.o .libs/contact-info.o .libs/coot-shelx-ins.o .libs/secondary-structure-headers.o .libs/plane-utils.o .libs/c-beta-deviations.o .libs/lidia-core-functions.o .libs/atom-tools.o .libs/bonded-atoms.o .libs/bricks.o .libs/helix-like.o .libs/merge-atom-selections.o .libs/contacts-by-bricks.o .libs/stack-and-pair.o .libs/fast-eigens.o .libs/strand-fragments.o .libs/sfcalc-genmap.o .libs/cablam-markup.o .libs/coot_shiftfield.o .libs/shiftfield.o .libs/slurp-map.o .libs/fib-sphere.o .libs/polar-atoms.o .libs/merge-molecules.o .libs/fragment-container.o .libs/mutate.o .libs/merge-C-and-N-terminii.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ../lidia-core/.libs/libcoot-lidia-core.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz ../geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-export-dynamic -Wl,-export-dynamic -Wl,-soname -Wl,libcoot-coord-utils.so.0 -o .libs/libcoot-coord-utils.so.0.0.0 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT segmap.lo -MD -MP -MF .deps/segmap.Tpo -c segmap.cc -o segmap.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-map-heavy.lo -MD -MP -MF .deps/coot-map-heavy.Tpo -c coot-map-heavy.cc -o coot-map-heavy.o >/dev/null 2>&1 libtool: link: (cd ".libs" && rm -f "libcoot-coord-utils.so.0" && ln -s "libcoot-coord-utils.so.0.0.0" "libcoot-coord-utils.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-coord-utils.so" && ln -s "libcoot-coord-utils.so.0.0.0" "libcoot-coord-utils.so") libtool: link: ar cru .libs/libcoot-coord-utils.a coot-coord-utils.o coot-coord-utils-nucleotides.o coot-rama.o coot-h-bonds.o hole.o read-sm-cif.o bonded-pairs.o helix-analysis.o elastic.o glyco-torsions.o coot-least-squares.o atom-overlaps.o reduce.o atom-selection-container.o contact-info.o coot-shelx-ins.o secondary-structure-headers.o plane-utils.o c-beta-deviations.o lidia-core-functions.o atom-tools.o bonded-atoms.o bricks.o helix-like.o merge-atom-selections.o contacts-by-bricks.o stack-and-pair.o fast-eigens.o strand-fragments.o sfcalc-genmap.o cablam-markup.o coot_shiftfield.o shiftfield.o slurp-map.o fib-sphere.o polar-atoms.o merge-molecules.o fragment-container.o mutate.o merge-C-and-N-terminii.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-fffear.lo -MD -MP -MF .deps/coot-fffear.Tpo -c coot-fffear.cc -o coot-fffear.o >/dev/null 2>&1 libtool: link: ranlib .libs/libcoot-coord-utils.a mv -f .deps/segmap.Tpo .deps/segmap.Plo libtool: link: ( cd ".libs" && rm -f "libcoot-coord-utils.la" && ln -s "../libcoot-coord-utils.la" "libcoot-coord-utils.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-coord-extras.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib coot-coord-extras.lo coot-coord-lsq.lo coot-tree-extras.lo water-coordination.lo lsq-improve.lo coot-coord-utils-glyco.lo jed-flip.lo libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/coot-coord-extras.o .libs/coot-coord-lsq.o .libs/coot-tree-extras.o .libs/water-coordination.o .libs/lsq-improve.o .libs/coot-coord-utils-glyco.o .libs/jed-flip.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ./.libs/libcoot-coord-utils.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil ../geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so ../mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-coord-extras.so.0 -o .libs/libcoot-coord-extras.so.0.0.0 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_GUILE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-map-utils.lo -MD -MP -MF .deps/coot-map-utils.Tpo -c coot-map-utils.cc -o coot-map-utils.o >/dev/null 2>&1 libtool: link: (cd ".libs" && rm -f "libcoot-coord-extras.so.0" && ln -s "libcoot-coord-extras.so.0.0.0" "libcoot-coord-extras.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-coord-extras.so" && ln -s "libcoot-coord-extras.so.0.0.0" "libcoot-coord-extras.so") libtool: link: ar cru .libs/libcoot-coord-extras.a coot-coord-extras.o coot-coord-lsq.o coot-tree-extras.o water-coordination.o lsq-improve.o coot-coord-utils-glyco.o jed-flip.o mv -f .deps/maps-spherical.Tpo .deps/maps-spherical.Plo libtool: link: ranlib .libs/libcoot-coord-extras.a mv -f .deps/coot-map-heavy.Tpo .deps/coot-map-heavy.Plo libtool: link: ( cd ".libs" && rm -f "libcoot-coord-extras.la" && ln -s "../libcoot-coord-extras.la" "libcoot-coord-extras.la" ) mv -f .deps/coot-fffear.Tpo .deps/coot-fffear.Plo mv -f .deps/coot-map-utils.Tpo .deps/coot-map-utils.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-map-utils.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib coot-map-utils.lo peak-search.lo peak-search-from-list.lo trim.lo xmap-stats.lo maps-spherical.lo pepflip-using-difference-map.lo libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm -lpthread libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/coot-map-utils.o .libs/peak-search.o .libs/peak-search-from-list.o .libs/trim.o .libs/xmap-stats.o .libs/maps-spherical.o .libs/pepflip-using-difference-map.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ./.libs/libcoot-coord-utils.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil ../geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lpthread -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-map-utils.so.0 -o .libs/libcoot-map-utils.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-map-utils.so.0" && ln -s "libcoot-map-utils.so.0.0.0" "libcoot-map-utils.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-map-utils.so" && ln -s "libcoot-map-utils.so.0.0.0" "libcoot-map-utils.so") libtool: link: ar cru .libs/libcoot-map-utils.a coot-map-utils.o peak-search.o peak-search-from-list.o trim.o xmap-stats.o maps-spherical.o pepflip-using-difference-map.o libtool: link: ranlib .libs/libcoot-map-utils.a libtool: link: ( cd ".libs" && rm -f "libcoot-map-utils.la" && ln -s "../libcoot-map-utils.la" "libcoot-map-utils.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-map-heavy.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib coot-map-heavy.lo coot-fffear.lo spherical-harmonics.lo segmap.lo libcoot-map-utils.la libcoot-coord-utils.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm -lpthread /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DHAVE_GSL -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o mmrrcc mmrrcc.o ./libcoot-map-utils.la ./libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: g++ -std=gnu++11 -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o .libs/mmrrcc mmrrcc.o ./.libs/libcoot-map-utils.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so ./.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil ../geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lm -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/coot-map-heavy.o .libs/coot-fffear.o .libs/spherical-harmonics.o .libs/segmap.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ./.libs/libcoot-map-utils.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so ./.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil ../mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lpthread -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-map-heavy.so.0 -o .libs/libcoot-map-heavy.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-map-heavy.so.0" && ln -s "libcoot-map-heavy.so.0.0.0" "libcoot-map-heavy.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-map-heavy.so" && ln -s "libcoot-map-heavy.so.0.0.0" "libcoot-map-heavy.so") libtool: link: ar cru .libs/libcoot-map-heavy.a coot-map-heavy.o coot-fffear.o spherical-harmonics.o segmap.o libtool: link: ranlib .libs/libcoot-map-heavy.a libtool: link: ( cd ".libs" && rm -f "libcoot-map-heavy.la" && ln -s "../libcoot-map-heavy.la" "libcoot-map-heavy.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils' Making all in angles make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/angles' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O1 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT libcoot_AngleInfo_la-AngleInfo.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo.Tpo -c -o libcoot_AngleInfo_la-AngleInfo.lo `test -f 'AngleInfo.cc' || echo './'`AngleInfo.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O1 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.Tpo -c -o libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.lo `test -f 'AngleInfo-angle-torsions-autogen.cc' || echo './'`AngleInfo-angle-torsions-autogen.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O1 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.Tpo -c -o libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.lo `test -f 'AngleInfo-theta_2-autogen.cc' || echo './'`AngleInfo-theta_2-autogen.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O1 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT libcoot_AngleInfo_la-AngleInfo.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo.Tpo -c AngleInfo.cc -fPIC -DPIC -o .libs/libcoot_AngleInfo_la-AngleInfo.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O1 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.Tpo -c AngleInfo-theta_2-autogen.cc -fPIC -DPIC -o .libs/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O1 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.Tpo -c AngleInfo-angle-torsions-autogen.cc -fPIC -DPIC -o .libs/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O1 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.Tpo -c AngleInfo-theta_2-autogen.cc -o libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.o >/dev/null 2>&1 mv -f .deps/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.Tpo .deps/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O1 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT libcoot_AngleInfo_la-AngleInfo.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo.Tpo -c AngleInfo.cc -o libcoot_AngleInfo_la-AngleInfo.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O1 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.Tpo -c AngleInfo-angle-torsions-autogen.cc -o libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.o >/dev/null 2>&1 mv -f .deps/libcoot_AngleInfo_la-AngleInfo.Tpo .deps/libcoot_AngleInfo_la-AngleInfo.Plo mv -f .deps/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.Tpo .deps/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -g -O1 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-AngleInfo.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib libcoot_AngleInfo_la-AngleInfo.lo libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.lo libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.lo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/libcoot_AngleInfo_la-AngleInfo.o .libs/libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.o .libs/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.o -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O1 -O3 -Wl,-soname -Wl,libcoot-AngleInfo.so.0 -o .libs/libcoot-AngleInfo.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-AngleInfo.so.0" && ln -s "libcoot-AngleInfo.so.0.0.0" "libcoot-AngleInfo.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-AngleInfo.so" && ln -s "libcoot-AngleInfo.so.0.0.0" "libcoot-AngleInfo.so") libtool: link: ar cru .libs/libcoot-AngleInfo.a libcoot_AngleInfo_la-AngleInfo.o libcoot_AngleInfo_la-AngleInfo-angle-torsions-autogen.o libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.o libtool: link: ranlib .libs/libcoot-AngleInfo.a libtool: link: ( cd ".libs" && rm -f "libcoot-AngleInfo.la" && ln -s "../libcoot-AngleInfo.la" "libcoot-AngleInfo.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/angles' Making all in ccp4mg-utils make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng15 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT geomutil.lo -MD -MP -MF .deps/geomutil.Tpo -c -o geomutil.lo geomutil.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng15 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mgtree.lo -MD -MP -MF .deps/mgtree.Tpo -c -o mgtree.lo mgtree.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng15 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cartesian.lo -MD -MP -MF .deps/cartesian.Tpo -c -o cartesian.lo cartesian.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng15 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT matrix.lo -MD -MP -MF .deps/matrix.Tpo -c -o matrix.lo matrix.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng15 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT quat.lo -MD -MP -MF .deps/quat.Tpo -c -o quat.lo quat.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng15 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ppmutil.lo -MD -MP -MF .deps/ppmutil.Tpo -c -o ppmutil.lo ppmutil.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng15 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT geomutil.lo -MD -MP -MF .deps/geomutil.Tpo -c geomutil.cc -fPIC -DPIC -o .libs/geomutil.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng15 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cartesian.lo -MD -MP -MF .deps/cartesian.Tpo -c cartesian.cc -fPIC -DPIC -o .libs/cartesian.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng15 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT matrix.lo -MD -MP -MF .deps/matrix.Tpo -c matrix.cc -fPIC -DPIC -o .libs/matrix.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng15 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mgtree.lo -MD -MP -MF .deps/mgtree.Tpo -c mgtree.cc -fPIC -DPIC -o .libs/mgtree.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng15 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT quat.lo -MD -MP -MF .deps/quat.Tpo -c quat.cc -fPIC -DPIC -o .libs/quat.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng15 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ppmutil.lo -MD -MP -MF .deps/ppmutil.Tpo -c ppmutil.cc -fPIC -DPIC -o .libs/ppmutil.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng15 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT geomutil.lo -MD -MP -MF .deps/geomutil.Tpo -c geomutil.cc -o geomutil.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng15 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cartesian.lo -MD -MP -MF .deps/cartesian.Tpo -c cartesian.cc -o cartesian.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng15 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT quat.lo -MD -MP -MF .deps/quat.Tpo -c quat.cc -o quat.o >/dev/null 2>&1 mv -f .deps/geomutil.Tpo .deps/geomutil.Plo mv -f .deps/cartesian.Tpo .deps/cartesian.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng15 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT matrix.lo -MD -MP -MF .deps/matrix.Tpo -c matrix.cc -o matrix.o >/dev/null 2>&1 mv -f .deps/quat.Tpo .deps/quat.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng15 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ppmutil.lo -MD -MP -MF .deps/ppmutil.Tpo -c ppmutil.cc -o ppmutil.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_LIBPNG=1 -I/usr/include/libpng15 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mgtree.lo -MD -MP -MF .deps/mgtree.Tpo -c mgtree.cc -o mgtree.o >/dev/null 2>&1 mv -f .deps/matrix.Tpo .deps/matrix.Plo mv -f .deps/ppmutil.Tpo .deps/ppmutil.Plo mv -f .deps/mgtree.Tpo .deps/mgtree.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libccp4mg-utils.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib geomutil.lo mgtree.lo cartesian.lo matrix.lo quat.lo ppmutil.lo -lpng15 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/geomutil.o .libs/mgtree.o .libs/cartesian.o .libs/matrix.o .libs/quat.o .libs/ppmutil.o -lpng15 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libccp4mg-utils.so.0 -o .libs/libccp4mg-utils.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libccp4mg-utils.so.0" && ln -s "libccp4mg-utils.so.0.0.0" "libccp4mg-utils.so.0") libtool: link: (cd ".libs" && rm -f "libccp4mg-utils.so" && ln -s "libccp4mg-utils.so.0.0.0" "libccp4mg-utils.so") libtool: link: ar cru .libs/libccp4mg-utils.a geomutil.o mgtree.o cartesian.o matrix.o quat.o ppmutil.o libtool: link: ranlib .libs/libccp4mg-utils.a libtool: link: ( cd ".libs" && rm -f "libccp4mg-utils.la" && ln -s "../libccp4mg-utils.la" "libccp4mg-utils.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils' Making all in db-main make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT db-main.lo -MD -MP -MF .deps/db-main.Tpo -c -o db-main.lo db-main.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT db-strands.lo -MD -MP -MF .deps/db-strands.Tpo -c -o db-strands.lo db-strands.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT db-strands.lo -MD -MP -MF .deps/db-strands.Tpo -c db-strands.cc -fPIC -DPIC -o .libs/db-strands.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT db-main.lo -MD -MP -MF .deps/db-main.Tpo -c db-main.cc -fPIC -DPIC -o .libs/db-main.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT db-strands.lo -MD -MP -MF .deps/db-strands.Tpo -c db-strands.cc -o db-strands.o >/dev/null 2>&1 mv -f .deps/db-strands.Tpo .deps/db-strands.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT db-main.lo -MD -MP -MF .deps/db-main.Tpo -c db-main.cc -o db-main.o >/dev/null 2>&1 mv -f .deps/db-main.Tpo .deps/db-main.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-db-main.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib db-main.lo db-strands.lo ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/db-main.o .libs/db-strands.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ../mini-mol/.libs/libcoot-mini-mol.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: ../coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil ../geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-db-main.so.0 -o .libs/libcoot-db-main.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-db-main.so.0" && ln -s "libcoot-db-main.so.0.0.0" "libcoot-db-main.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-db-main.so" && ln -s "libcoot-db-main.so.0.0.0" "libcoot-db-main.so") libtool: link: ar cru .libs/libcoot-db-main.a db-main.o db-strands.o libtool: link: ranlib .libs/libcoot-db-main.a libtool: link: ( cd ".libs" && rm -f "libcoot-db-main.la" && ln -s "../libcoot-db-main.la" "libcoot-db-main.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main' Making all in analysis make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bfkurt.lo -MD -MP -MF .deps/bfkurt.Tpo -c -o bfkurt.lo bfkurt.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mogul.lo -MD -MP -MF .deps/mogul.Tpo -c -o mogul.lo mogul.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT kolmogorov.lo -MD -MP -MF .deps/kolmogorov.Tpo -c -o kolmogorov.lo kolmogorov.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT stats.lo -MD -MP -MF .deps/stats.Tpo -c -o stats.lo stats.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cablam.lo -MD -MP -MF .deps/cablam.Tpo -c -o cablam.lo cablam.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT typed-distances.lo -MD -MP -MF .deps/typed-distances.Tpo -c -o typed-distances.lo typed-distances.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT b-factor-histogram.lo -MD -MP -MF .deps/b-factor-histogram.Tpo -c -o b-factor-histogram.lo b-factor-histogram.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT daca.lo -MD -MP -MF .deps/daca.Tpo -c -o daca.lo daca.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bfkurt.lo -MD -MP -MF .deps/bfkurt.Tpo -c bfkurt.cc -fPIC -DPIC -o .libs/bfkurt.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cablam.lo -MD -MP -MF .deps/cablam.Tpo -c cablam.cc -fPIC -DPIC -o .libs/cablam.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT daca.lo -MD -MP -MF .deps/daca.Tpo -c daca.cc -fPIC -DPIC -o .libs/daca.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT b-factor-histogram.lo -MD -MP -MF .deps/b-factor-histogram.Tpo -c b-factor-histogram.cc -fPIC -DPIC -o .libs/b-factor-histogram.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT stats.lo -MD -MP -MF .deps/stats.Tpo -c stats.cc -fPIC -DPIC -o .libs/stats.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT typed-distances.lo -MD -MP -MF .deps/typed-distances.Tpo -c typed-distances.cc -fPIC -DPIC -o .libs/typed-distances.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT kolmogorov.lo -MD -MP -MF .deps/kolmogorov.Tpo -c kolmogorov.cc -fPIC -DPIC -o .libs/kolmogorov.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mogul.lo -MD -MP -MF .deps/mogul.Tpo -c mogul.cc -fPIC -DPIC -o .libs/mogul.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT stats.lo -MD -MP -MF .deps/stats.Tpo -c stats.cc -o stats.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT kolmogorov.lo -MD -MP -MF .deps/kolmogorov.Tpo -c kolmogorov.cc -o kolmogorov.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT b-factor-histogram.lo -MD -MP -MF .deps/b-factor-histogram.Tpo -c b-factor-histogram.cc -o b-factor-histogram.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cablam.lo -MD -MP -MF .deps/cablam.Tpo -c cablam.cc -o cablam.o >/dev/null 2>&1 mv -f .deps/stats.Tpo .deps/stats.Plo g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bfactan.o -MD -MP -MF .deps/bfactan.Tpo -c -o bfactan.o bfactan.cc mv -f .deps/bfactan.Tpo .deps/bfactan.Po libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT typed-distances.lo -MD -MP -MF .deps/typed-distances.Tpo -c typed-distances.cc -o typed-distances.o >/dev/null 2>&1 mv -f .deps/kolmogorov.Tpo .deps/kolmogorov.Plo mv -f .deps/b-factor-histogram.Tpo .deps/b-factor-histogram.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT bfkurt.lo -MD -MP -MF .deps/bfkurt.Tpo -c bfkurt.cc -o bfkurt.o >/dev/null 2>&1 mv -f .deps/cablam.Tpo .deps/cablam.Plo mv -f .deps/typed-distances.Tpo .deps/typed-distances.Plo mv -f .deps/bfkurt.Tpo .deps/bfkurt.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mogul.lo -MD -MP -MF .deps/mogul.Tpo -c mogul.cc -o mogul.o >/dev/null 2>&1 mv -f .deps/mogul.Tpo .deps/mogul.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT daca.lo -MD -MP -MF .deps/daca.Tpo -c daca.cc -o daca.o >/dev/null 2>&1 mv -f .deps/daca.Tpo .deps/daca.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-analysis.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib bfkurt.lo mogul.lo kolmogorov.lo stats.lo cablam.lo typed-distances.lo b-factor-histogram.lo daca.lo ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/bfkurt.o .libs/mogul.o .libs/kolmogorov.o .libs/stats.o .libs/cablam.o .libs/typed-distances.o .libs/b-factor-histogram.o .libs/daca.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ../coot-utils/.libs/libcoot-coord-utils.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so ../geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so ../mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-export-dynamic -Wl,-soname -Wl,libcoot-analysis.so.0 -o .libs/libcoot-analysis.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-analysis.so.0" && ln -s "libcoot-analysis.so.0.0.0" "libcoot-analysis.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-analysis.so" && ln -s "libcoot-analysis.so.0.0.0" "libcoot-analysis.so") libtool: link: ar cru .libs/libcoot-analysis.a bfkurt.o mogul.o kolmogorov.o stats.o cablam.o typed-distances.o b-factor-histogram.o daca.o libtool: link: ranlib .libs/libcoot-analysis.a libtool: link: ( cd ".libs" && rm -f "libcoot-analysis.la" && ln -s "../libcoot-analysis.la" "libcoot-analysis.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o coot-bfactan bfactan.o libcoot-analysis.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 libtool: link: g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o .libs/coot-bfactan bfactan.o ./.libs/libcoot-analysis.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so ../lidia-core/.libs/libcoot-lidia-core.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lutil /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz -ldl ../geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so ../mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lm -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis' Making all in cootaneer make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT buccaneer-lib.lo -MD -MP -MF .deps/buccaneer-lib.Tpo -c -o buccaneer-lib.lo buccaneer-lib.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT buccaneer-prot.lo -MD -MP -MF .deps/buccaneer-prot.Tpo -c -o buccaneer-prot.lo buccaneer-prot.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT buccaneer-sequence.lo -MD -MP -MF .deps/buccaneer-sequence.Tpo -c -o buccaneer-sequence.lo buccaneer-sequence.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cootaneer-sequence.lo -MD -MP -MF .deps/cootaneer-sequence.Tpo -c -o cootaneer-sequence.lo cootaneer-sequence.cpp libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT buccaneer-lib.lo -MD -MP -MF .deps/buccaneer-lib.Tpo -c buccaneer-lib.cpp -fPIC -DPIC -o .libs/buccaneer-lib.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT buccaneer-sequence.lo -MD -MP -MF .deps/buccaneer-sequence.Tpo -c buccaneer-sequence.cpp -fPIC -DPIC -o .libs/buccaneer-sequence.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT buccaneer-prot.lo -MD -MP -MF .deps/buccaneer-prot.Tpo -c buccaneer-prot.cpp -fPIC -DPIC -o .libs/buccaneer-prot.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cootaneer-sequence.lo -MD -MP -MF .deps/cootaneer-sequence.Tpo -c cootaneer-sequence.cpp -fPIC -DPIC -o .libs/cootaneer-sequence.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT buccaneer-lib.lo -MD -MP -MF .deps/buccaneer-lib.Tpo -c buccaneer-lib.cpp -o buccaneer-lib.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cootaneer-sequence.lo -MD -MP -MF .deps/cootaneer-sequence.Tpo -c cootaneer-sequence.cpp -o cootaneer-sequence.o >/dev/null 2>&1 mv -f .deps/buccaneer-lib.Tpo .deps/buccaneer-lib.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT buccaneer-prot.lo -MD -MP -MF .deps/buccaneer-prot.Tpo -c buccaneer-prot.cpp -o buccaneer-prot.o >/dev/null 2>&1 mv -f .deps/cootaneer-sequence.Tpo .deps/cootaneer-sequence.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT buccaneer-sequence.lo -MD -MP -MF .deps/buccaneer-sequence.Tpo -c buccaneer-sequence.cpp -o buccaneer-sequence.o >/dev/null 2>&1 mv -f .deps/buccaneer-prot.Tpo .deps/buccaneer-prot.Plo mv -f .deps/buccaneer-sequence.Tpo .deps/buccaneer-sequence.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcootaneer.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib buccaneer-lib.lo buccaneer-prot.lo buccaneer-sequence.lo cootaneer-sequence.lo -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/buccaneer-lib.o .libs/buccaneer-prot.o .libs/buccaneer-sequence.o .libs/cootaneer-sequence.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcootaneer.so.0 -o .libs/libcootaneer.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcootaneer.so.0" && ln -s "libcootaneer.so.0.0.0" "libcootaneer.so.0") libtool: link: (cd ".libs" && rm -f "libcootaneer.so" && ln -s "libcootaneer.so.0.0.0" "libcootaneer.so") libtool: link: ar cru .libs/libcootaneer.a buccaneer-lib.o buccaneer-prot.o buccaneer-sequence.o cootaneer-sequence.o libtool: link: ranlib .libs/libcootaneer.a libtool: link: ( cd ".libs" && rm -f "libcootaneer.la" && ln -s "../libcootaneer.la" "libcootaneer.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer' Making all in ideal make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT simple-restraint.lo -MD -MP -MF .deps/simple-restraint.Tpo -c -o simple-restraint.lo simple-restraint.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT make-restraints.lo -MD -MP -MF .deps/make-restraints.Tpo -c -o make-restraints.lo make-restraints.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ng.lo -MD -MP -MF .deps/ng.Tpo -c -o ng.lo ng.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT chi-squareds.lo -MD -MP -MF .deps/chi-squareds.Tpo -c -o chi-squareds.lo chi-squareds.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mods.lo -MD -MP -MF .deps/mods.Tpo -c -o mods.lo mods.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT distortion.lo -MD -MP -MF .deps/distortion.Tpo -c -o distortion.lo distortion.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT chirals.lo -MD -MP -MF .deps/chirals.Tpo -c -o chirals.lo chirals.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT flanking.lo -MD -MP -MF .deps/flanking.Tpo -c -o flanking.lo flanking.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT simple-restraint.lo -MD -MP -MF .deps/simple-restraint.Tpo -c simple-restraint.cc -fPIC -DPIC -o .libs/simple-restraint.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT distortion.lo -MD -MP -MF .deps/distortion.Tpo -c distortion.cc -fPIC -DPIC -o .libs/distortion.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT make-restraints.lo -MD -MP -MF .deps/make-restraints.Tpo -c make-restraints.cc -fPIC -DPIC -o .libs/make-restraints.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT chirals.lo -MD -MP -MF .deps/chirals.Tpo -c chirals.cc -fPIC -DPIC -o .libs/chirals.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ng.lo -MD -MP -MF .deps/ng.Tpo -c ng.cc -fPIC -DPIC -o .libs/ng.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mods.lo -MD -MP -MF .deps/mods.Tpo -c mods.cc -fPIC -DPIC -o .libs/mods.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT chi-squareds.lo -MD -MP -MF .deps/chi-squareds.Tpo -c chi-squareds.cc -fPIC -DPIC -o .libs/chi-squareds.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT flanking.lo -MD -MP -MF .deps/flanking.Tpo -c flanking.cc -fPIC -DPIC -o .libs/flanking.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT flanking.lo -MD -MP -MF .deps/flanking.Tpo -c flanking.cc -o flanking.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT chirals.lo -MD -MP -MF .deps/chirals.Tpo -c chirals.cc -o chirals.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mods.lo -MD -MP -MF .deps/mods.Tpo -c mods.cc -o mods.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT chi-squareds.lo -MD -MP -MF .deps/chi-squareds.Tpo -c chi-squareds.cc -o chi-squareds.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT distortion.lo -MD -MP -MF .deps/distortion.Tpo -c distortion.cc -o distortion.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT make-restraints.lo -MD -MP -MF .deps/make-restraints.Tpo -c make-restraints.cc -o make-restraints.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ng.lo -MD -MP -MF .deps/ng.Tpo -c ng.cc -o ng.o >/dev/null 2>&1 mv -f .deps/flanking.Tpo .deps/flanking.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT gradients.lo -MD -MP -MF .deps/gradients.Tpo -c -o gradients.lo gradients.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT gradients.lo -MD -MP -MF .deps/gradients.Tpo -c gradients.cc -fPIC -DPIC -o .libs/gradients.o mv -f .deps/chirals.Tpo .deps/chirals.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT extra-restraints.lo -MD -MP -MF .deps/extra-restraints.Tpo -c -o extra-restraints.lo extra-restraints.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT extra-restraints.lo -MD -MP -MF .deps/extra-restraints.Tpo -c extra-restraints.cc -fPIC -DPIC -o .libs/extra-restraints.o mv -f .deps/chi-squareds.Tpo .deps/chi-squareds.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pepflip.lo -MD -MP -MF .deps/pepflip.Tpo -c -o pepflip.lo pepflip.cc mv -f .deps/mods.Tpo .deps/mods.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT regularize-minimol.lo -MD -MP -MF .deps/regularize-minimol.Tpo -c -o regularize-minimol.lo regularize-minimol.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pepflip.lo -MD -MP -MF .deps/pepflip.Tpo -c pepflip.cc -fPIC -DPIC -o .libs/pepflip.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT regularize-minimol.lo -MD -MP -MF .deps/regularize-minimol.Tpo -c regularize-minimol.cc -fPIC -DPIC -o .libs/regularize-minimol.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pepflip.lo -MD -MP -MF .deps/pepflip.Tpo -c pepflip.cc -o pepflip.o >/dev/null 2>&1 mv -f .deps/pepflip.Tpo .deps/pepflip.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lograma.lo -MD -MP -MF .deps/lograma.Tpo -c -o lograma.lo lograma.cpp libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lograma.lo -MD -MP -MF .deps/lograma.Tpo -c lograma.cpp -fPIC -DPIC -o .libs/lograma.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lograma.lo -MD -MP -MF .deps/lograma.Tpo -c lograma.cpp -o lograma.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT gradients.lo -MD -MP -MF .deps/gradients.Tpo -c gradients.cc -o gradients.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT simple-restraint.lo -MD -MP -MF .deps/simple-restraint.Tpo -c simple-restraint.cc -o simple-restraint.o >/dev/null 2>&1 mv -f .deps/lograma.Tpo .deps/lograma.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT process-dfs-in-range.lo -MD -MP -MF .deps/process-dfs-in-range.Tpo -c -o process-dfs-in-range.lo process-dfs-in-range.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT process-dfs-in-range.lo -MD -MP -MF .deps/process-dfs-in-range.Tpo -c process-dfs-in-range.cc -fPIC -DPIC -o .libs/process-dfs-in-range.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT regularize-minimol.lo -MD -MP -MF .deps/regularize-minimol.Tpo -c regularize-minimol.cc -o regularize-minimol.o >/dev/null 2>&1 mv -f .deps/make-restraints.Tpo .deps/make-restraints.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT crankshaft.lo -MD -MP -MF .deps/crankshaft.Tpo -c -o crankshaft.lo crankshaft.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT crankshaft.lo -MD -MP -MF .deps/crankshaft.Tpo -c crankshaft.cc -fPIC -DPIC -o .libs/crankshaft.o mv -f .deps/distortion.Tpo .deps/distortion.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT extra-restraints-kk.lo -MD -MP -MF .deps/extra-restraints-kk.Tpo -c -o extra-restraints-kk.lo extra-restraints-kk.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT extra-restraints-kk.lo -MD -MP -MF .deps/extra-restraints-kk.Tpo -c extra-restraints-kk.cc -fPIC -DPIC -o .libs/extra-restraints-kk.o mv -f .deps/ng.Tpo .deps/ng.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT simple-restraint-kk.lo -MD -MP -MF .deps/simple-restraint-kk.Tpo -c -o simple-restraint-kk.lo simple-restraint-kk.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT extra-restraints.lo -MD -MP -MF .deps/extra-restraints.Tpo -c extra-restraints.cc -o extra-restraints.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT simple-restraint-kk.lo -MD -MP -MF .deps/simple-restraint-kk.Tpo -c simple-restraint-kk.cc -fPIC -DPIC -o .libs/simple-restraint-kk.o mv -f .deps/gradients.Tpo .deps/gradients.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT torsion-bonds.lo -MD -MP -MF .deps/torsion-bonds.Tpo -c -o torsion-bonds.lo torsion-bonds.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT torsion-bonds.lo -MD -MP -MF .deps/torsion-bonds.Tpo -c torsion-bonds.cc -fPIC -DPIC -o .libs/torsion-bonds.o mv -f .deps/regularize-minimol.Tpo .deps/regularize-minimol.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-compare-residues.lo -MD -MP -MF .deps/coot-compare-residues.Tpo -c -o coot-compare-residues.lo coot-compare-residues.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-compare-residues.lo -MD -MP -MF .deps/coot-compare-residues.Tpo -c coot-compare-residues.cc -fPIC -DPIC -o .libs/coot-compare-residues.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT process-dfs-in-range.lo -MD -MP -MF .deps/process-dfs-in-range.Tpo -c process-dfs-in-range.cc -o process-dfs-in-range.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT simple-restraint-kk.lo -MD -MP -MF .deps/simple-restraint-kk.Tpo -c simple-restraint-kk.cc -o simple-restraint-kk.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT extra-restraints-kk.lo -MD -MP -MF .deps/extra-restraints-kk.Tpo -c extra-restraints-kk.cc -o extra-restraints-kk.o >/dev/null 2>&1 mv -f .deps/extra-restraints.Tpo .deps/extra-restraints.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT link-restraints.lo -MD -MP -MF .deps/link-restraints.Tpo -c -o link-restraints.lo link-restraints.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT link-restraints.lo -MD -MP -MF .deps/link-restraints.Tpo -c link-restraints.cc -fPIC -DPIC -o .libs/link-restraints.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT crankshaft.lo -MD -MP -MF .deps/crankshaft.Tpo -c crankshaft.cc -o crankshaft.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-compare-residues.lo -MD -MP -MF .deps/coot-compare-residues.Tpo -c coot-compare-residues.cc -o coot-compare-residues.o >/dev/null 2>&1 mv -f .deps/simple-restraint-kk.Tpo .deps/simple-restraint-kk.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT parallel-planes.lo -MD -MP -MF .deps/parallel-planes.Tpo -c -o parallel-planes.lo parallel-planes.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT parallel-planes.lo -MD -MP -MF .deps/parallel-planes.Tpo -c parallel-planes.cc -fPIC -DPIC -o .libs/parallel-planes.o mv -f .deps/extra-restraints-kk.Tpo .deps/extra-restraints-kk.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pull-restraint.lo -MD -MP -MF .deps/pull-restraint.Tpo -c -o pull-restraint.lo pull-restraint.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pull-restraint.lo -MD -MP -MF .deps/pull-restraint.Tpo -c pull-restraint.cc -fPIC -DPIC -o .libs/pull-restraint.o mv -f .deps/process-dfs-in-range.Tpo .deps/process-dfs-in-range.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT trans-peptide.lo -MD -MP -MF .deps/trans-peptide.Tpo -c -o trans-peptide.lo trans-peptide.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT trans-peptide.lo -MD -MP -MF .deps/trans-peptide.Tpo -c trans-peptide.cc -fPIC -DPIC -o .libs/trans-peptide.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT torsion-bonds.lo -MD -MP -MF .deps/torsion-bonds.Tpo -c torsion-bonds.cc -o torsion-bonds.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT parallel-planes.lo -MD -MP -MF .deps/parallel-planes.Tpo -c parallel-planes.cc -o parallel-planes.o >/dev/null 2>&1 mv -f .deps/coot-compare-residues.Tpo .deps/coot-compare-residues.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT model-bond-deltas.lo -MD -MP -MF .deps/model-bond-deltas.Tpo -c -o model-bond-deltas.lo model-bond-deltas.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT model-bond-deltas.lo -MD -MP -MF .deps/model-bond-deltas.Tpo -c model-bond-deltas.cc -fPIC -DPIC -o .libs/model-bond-deltas.o mv -f .deps/simple-restraint.Tpo .deps/simple-restraint.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT write-png.lo -MD -MP -MF .deps/write-png.Tpo -c -o write-png.lo write-png.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT write-png.lo -MD -MP -MF .deps/write-png.Tpo -c write-png.cc -fPIC -DPIC -o .libs/write-png.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT write-png.lo -MD -MP -MF .deps/write-png.Tpo -c write-png.cc -o write-png.o >/dev/null 2>&1 mv -f .deps/write-png.Tpo .deps/write-png.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT zo-rama.lo -MD -MP -MF .deps/zo-rama.Tpo -c -o zo-rama.lo zo-rama.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT zo-rama.lo -MD -MP -MF .deps/zo-rama.Tpo -c zo-rama.cc -fPIC -DPIC -o .libs/zo-rama.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pull-restraint.lo -MD -MP -MF .deps/pull-restraint.Tpo -c pull-restraint.cc -o pull-restraint.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT trans-peptide.lo -MD -MP -MF .deps/trans-peptide.Tpo -c trans-peptide.cc -o trans-peptide.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT zo-rama.lo -MD -MP -MF .deps/zo-rama.Tpo -c zo-rama.cc -o zo-rama.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT link-restraints.lo -MD -MP -MF .deps/link-restraints.Tpo -c link-restraints.cc -o link-restraints.o >/dev/null 2>&1 mv -f .deps/parallel-planes.Tpo .deps/parallel-planes.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT phi-psi.lo -MD -MP -MF .deps/phi-psi.Tpo -c -o phi-psi.lo phi-psi.cc mv -f .deps/zo-rama.Tpo .deps/zo-rama.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT neutron.lo -MD -MP -MF .deps/neutron.Tpo -c -o neutron.lo neutron.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT phi-psi.lo -MD -MP -MF .deps/phi-psi.Tpo -c phi-psi.cc -fPIC -DPIC -o .libs/phi-psi.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT neutron.lo -MD -MP -MF .deps/neutron.Tpo -c neutron.cc -fPIC -DPIC -o .libs/neutron.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT phi-psi.lo -MD -MP -MF .deps/phi-psi.Tpo -c phi-psi.cc -o phi-psi.o >/dev/null 2>&1 mv -f .deps/phi-psi.Tpo .deps/phi-psi.Plo g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mini-rsr.o -MD -MP -MF .deps/mini-rsr.Tpo -c -o mini-rsr.o mini-rsr.cc mv -f .deps/crankshaft.Tpo .deps/crankshaft.Plo g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lv.o -MD -MP -MF .deps/lv.Tpo -c -o lv.o lv.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT model-bond-deltas.lo -MD -MP -MF .deps/model-bond-deltas.Tpo -c model-bond-deltas.cc -o model-bond-deltas.o >/dev/null 2>&1 mv -f .deps/pull-restraint.Tpo .deps/pull-restraint.Plo mv -f .deps/trans-peptide.Tpo .deps/trans-peptide.Plo mv -f .deps/torsion-bonds.Tpo .deps/torsion-bonds.Plo mv -f .deps/model-bond-deltas.Tpo .deps/model-bond-deltas.Plo mv -f .deps/link-restraints.Tpo .deps/link-restraints.Plo mv -f .deps/lv.Tpo .deps/lv.Po mv -f .deps/mini-rsr.Tpo .deps/mini-rsr.Po libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT neutron.lo -MD -MP -MF .deps/neutron.Tpo -c neutron.cc -o neutron.o >/dev/null 2>&1 mv -f .deps/neutron.Tpo .deps/neutron.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -lpthread -o libcoot-ideal.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib simple-restraint.lo make-restraints.lo ng.lo chi-squareds.lo mods.lo distortion.lo chirals.lo flanking.lo gradients.lo extra-restraints.lo pepflip.lo regularize-minimol.lo lograma.lo process-dfs-in-range.lo crankshaft.lo extra-restraints-kk.lo simple-restraint-kk.lo torsion-bonds.lo coot-compare-residues.lo link-restraints.lo parallel-planes.lo pull-restraint.lo trans-peptide.lo model-bond-deltas.lo write-png.lo zo-rama.lo phi-psi.lo neutron.lo ../coot-utils/libcoot-map-heavy.la ../coot-utils/libcoot-map-utils.la ../geometry/libcoot-geometry.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm -lpng15 -lm libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/simple-restraint.o .libs/make-restraints.o .libs/ng.o .libs/chi-squareds.o .libs/mods.o .libs/distortion.o .libs/chirals.o .libs/flanking.o .libs/gradients.o .libs/extra-restraints.o .libs/pepflip.o .libs/regularize-minimol.o .libs/lograma.o .libs/process-dfs-in-range.o .libs/crankshaft.o .libs/extra-restraints-kk.o .libs/simple-restraint-kk.o .libs/torsion-bonds.o .libs/coot-compare-residues.o .libs/link-restraints.o .libs/parallel-planes.o .libs/pull-restraint.o .libs/trans-peptide.o .libs/model-bond-deltas.o .libs/write-png.o .libs/zo-rama.o .libs/phi-psi.o .libs/neutron.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs ../coot-utils/.libs/libcoot-map-heavy.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../geometry/.libs/libcoot-geometry.so ../coot-utils/.libs/libcoot-coord-extras.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so ../lidia-core/.libs/libcoot-lidia-core.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lutil /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz -ldl /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lpng15 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-ideal.so.0 -o .libs/libcoot-ideal.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-ideal.so.0" && ln -s "libcoot-ideal.so.0.0.0" "libcoot-ideal.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-ideal.so" && ln -s "libcoot-ideal.so.0.0.0" "libcoot-ideal.so") libtool: link: ar cru .libs/libcoot-ideal.a simple-restraint.o make-restraints.o ng.o chi-squareds.o mods.o distortion.o chirals.o flanking.o gradients.o extra-restraints.o pepflip.o regularize-minimol.o lograma.o process-dfs-in-range.o crankshaft.o extra-restraints-kk.o simple-restraint-kk.o torsion-bonds.o coot-compare-residues.o link-restraints.o parallel-planes.o pull-restraint.o trans-peptide.o model-bond-deltas.o write-png.o zo-rama.o phi-psi.o neutron.o libtool: link: ranlib .libs/libcoot-ideal.a libtool: link: ( cd ".libs" && rm -f "libcoot-ideal.la" && ln -s "../libcoot-ideal.la" "libcoot-ideal.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -o mini-rsr-bin mini-rsr.o ./libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la ../compat/libcoot-compat.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm -lpthread /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -o coot-ligand-validation-bin lv.o ./libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la ../compat/libcoot-compat.la -lpthread libtool: link: g++ -std=gnu++11 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o .libs/coot-ligand-validation-bin lv.o -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: ./.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-extras.so -lpng15 ../coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-extras.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so ../lidia-core/.libs/libcoot-lidia-core.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lutil /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz -ldl ../geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so ../mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lm /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so ../utils/.libs/libcoot-utils.so ../compat/.libs/libcoot-compat.so -lpthread -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib libtool: link: g++ -std=gnu++11 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o .libs/mini-rsr-bin mini-rsr.o -Wl,-export-dynamic -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: ./.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-extras.so -lpng15 ../coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-utils.so ../geometry/.libs/libcoot-geometry.so ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-extras.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so ../lidia-core/.libs/libcoot-lidia-core.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so ../compat/.libs/libcoot-compat.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lm -lpthread -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal' Making all in ligand make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ligand.lo -MD -MP -MF .deps/ligand.Tpo -c -o ligand.lo ligand.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ligand-extras.lo -MD -MP -MF .deps/ligand-extras.Tpo -c -o ligand-extras.lo ligand-extras.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT residue_by_phi_psi.lo -MD -MP -MF .deps/residue_by_phi_psi.Tpo -c -o residue_by_phi_psi.lo residue_by_phi_psi.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT wiggly-ligand.lo -MD -MP -MF .deps/wiggly-ligand.Tpo -c -o wiggly-ligand.lo wiggly-ligand.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT monomer-utils.lo -MD -MP -MF .deps/monomer-utils.Tpo -c -o monomer-utils.lo monomer-utils.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dunbrack.lo -MD -MP -MF .deps/dunbrack.Tpo -c -o dunbrack.lo dunbrack.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT chi-angles-autogen.lo -MD -MP -MF .deps/chi-angles-autogen.Tpo -c -o chi-angles-autogen.lo chi-angles-autogen.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT chi-angles.lo -MD -MP -MF .deps/chi-angles.Tpo -c -o chi-angles.lo chi-angles.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ligand.lo -MD -MP -MF .deps/ligand.Tpo -c ligand.cc -fPIC -DPIC -o .libs/ligand.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT residue_by_phi_psi.lo -MD -MP -MF .deps/residue_by_phi_psi.Tpo -c residue_by_phi_psi.cc -fPIC -DPIC -o .libs/residue_by_phi_psi.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dunbrack.lo -MD -MP -MF .deps/dunbrack.Tpo -c dunbrack.cc -fPIC -DPIC -o .libs/dunbrack.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT chi-angles-autogen.lo -MD -MP -MF .deps/chi-angles-autogen.Tpo -c chi-angles-autogen.cc -fPIC -DPIC -o .libs/chi-angles-autogen.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ligand-extras.lo -MD -MP -MF .deps/ligand-extras.Tpo -c ligand-extras.cc -fPIC -DPIC -o .libs/ligand-extras.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT wiggly-ligand.lo -MD -MP -MF .deps/wiggly-ligand.Tpo -c wiggly-ligand.cc -fPIC -DPIC -o .libs/wiggly-ligand.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT monomer-utils.lo -MD -MP -MF .deps/monomer-utils.Tpo -c monomer-utils.cc -fPIC -DPIC -o .libs/monomer-utils.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT chi-angles.lo -MD -MP -MF .deps/chi-angles.Tpo -c chi-angles.cc -fPIC -DPIC -o .libs/chi-angles.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT monomer-utils.lo -MD -MP -MF .deps/monomer-utils.Tpo -c monomer-utils.cc -o monomer-utils.o >/dev/null 2>&1 mv -f .deps/monomer-utils.Tpo .deps/monomer-utils.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT helix-placement.lo -MD -MP -MF .deps/helix-placement.Tpo -c -o helix-placement.lo helix-placement.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT helix-placement.lo -MD -MP -MF .deps/helix-placement.Tpo -c helix-placement.cc -fPIC -DPIC -o .libs/helix-placement.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT chi-angles.lo -MD -MP -MF .deps/chi-angles.Tpo -c chi-angles.cc -o chi-angles.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dunbrack.lo -MD -MP -MF .deps/dunbrack.Tpo -c dunbrack.cc -o dunbrack.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ligand-extras.lo -MD -MP -MF .deps/ligand-extras.Tpo -c ligand-extras.cc -o ligand-extras.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT residue_by_phi_psi.lo -MD -MP -MF .deps/residue_by_phi_psi.Tpo -c residue_by_phi_psi.cc -o residue_by_phi_psi.o >/dev/null 2>&1 mv -f .deps/dunbrack.Tpo .deps/dunbrack.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT fast-ss-search.lo -MD -MP -MF .deps/fast-ss-search.Tpo -c -o fast-ss-search.lo fast-ss-search.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT fast-ss-search.lo -MD -MP -MF .deps/fast-ss-search.Tpo -c fast-ss-search.cc -fPIC -DPIC -o .libs/fast-ss-search.o mv -f .deps/chi-angles.Tpo .deps/chi-angles.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rigid-body.lo -MD -MP -MF .deps/rigid-body.Tpo -c -o rigid-body.lo rigid-body.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT wiggly-ligand.lo -MD -MP -MF .deps/wiggly-ligand.Tpo -c wiggly-ligand.cc -o wiggly-ligand.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rigid-body.lo -MD -MP -MF .deps/rigid-body.Tpo -c rigid-body.cc -fPIC -DPIC -o .libs/rigid-body.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ligand.lo -MD -MP -MF .deps/ligand.Tpo -c ligand.cc -o ligand.o >/dev/null 2>&1 mv -f .deps/ligand-extras.Tpo .deps/ligand-extras.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ideal-rna.lo -MD -MP -MF .deps/ideal-rna.Tpo -c -o ideal-rna.lo ideal-rna.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ideal-rna.lo -MD -MP -MF .deps/ideal-rna.Tpo -c ideal-rna.cc -fPIC -DPIC -o .libs/ideal-rna.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT helix-placement.lo -MD -MP -MF .deps/helix-placement.Tpo -c helix-placement.cc -o helix-placement.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rigid-body.lo -MD -MP -MF .deps/rigid-body.Tpo -c rigid-body.cc -o rigid-body.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ideal-rna.lo -MD -MP -MF .deps/ideal-rna.Tpo -c ideal-rna.cc -o ideal-rna.o >/dev/null 2>&1 mv -f .deps/residue_by_phi_psi.Tpo .deps/residue_by_phi_psi.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT richardson-rotamers.lo -MD -MP -MF .deps/richardson-rotamers.Tpo -c -o richardson-rotamers.lo richardson-rotamers.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT richardson-rotamers.lo -MD -MP -MF .deps/richardson-rotamers.Tpo -c richardson-rotamers.cc -fPIC -DPIC -o .libs/richardson-rotamers.o mv -f .deps/ideal-rna.Tpo .deps/ideal-rna.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT richardson-rotamer.lo -MD -MP -MF .deps/richardson-rotamer.Tpo -c -o richardson-rotamer.lo richardson-rotamer.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT richardson-rotamer.lo -MD -MP -MF .deps/richardson-rotamer.Tpo -c richardson-rotamer.cc -fPIC -DPIC -o .libs/richardson-rotamer.o mv -f .deps/rigid-body.Tpo .deps/rigid-body.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rotamer.lo -MD -MP -MF .deps/rotamer.Tpo -c -o rotamer.lo rotamer.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rotamer.lo -MD -MP -MF .deps/rotamer.Tpo -c rotamer.cc -fPIC -DPIC -o .libs/rotamer.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT fast-ss-search.lo -MD -MP -MF .deps/fast-ss-search.Tpo -c fast-ss-search.cc -o fast-ss-search.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT richardson-rotamer.lo -MD -MP -MF .deps/richardson-rotamer.Tpo -c richardson-rotamer.cc -o richardson-rotamer.o >/dev/null 2>&1 mv -f .deps/richardson-rotamer.Tpo .deps/richardson-rotamer.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT torsion-general.lo -MD -MP -MF .deps/torsion-general.Tpo -c -o torsion-general.lo torsion-general.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT torsion-general.lo -MD -MP -MF .deps/torsion-general.Tpo -c torsion-general.cc -fPIC -DPIC -o .libs/torsion-general.o mv -f .deps/wiggly-ligand.Tpo .deps/wiggly-ligand.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rotamer-tables.lo -MD -MP -MF .deps/rotamer-tables.Tpo -c -o rotamer-tables.lo rotamer-tables.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rotamer-tables.lo -MD -MP -MF .deps/rotamer-tables.Tpo -c rotamer-tables.cc -fPIC -DPIC -o .libs/rotamer-tables.o mv -f .deps/helix-placement.Tpo .deps/helix-placement.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT primitive-chi-angles.lo -MD -MP -MF .deps/primitive-chi-angles.Tpo -c -o primitive-chi-angles.lo primitive-chi-angles.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT torsion-general.lo -MD -MP -MF .deps/torsion-general.Tpo -c torsion-general.cc -o torsion-general.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT primitive-chi-angles.lo -MD -MP -MF .deps/primitive-chi-angles.Tpo -c primitive-chi-angles.cc -fPIC -DPIC -o .libs/primitive-chi-angles.o mv -f .deps/fast-ss-search.Tpo .deps/fast-ss-search.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dipole.lo -MD -MP -MF .deps/dipole.Tpo -c -o dipole.lo dipole.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dipole.lo -MD -MP -MF .deps/dipole.Tpo -c dipole.cc -fPIC -DPIC -o .libs/dipole.o mv -f .deps/torsion-general.Tpo .deps/torsion-general.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT base-pairing.lo -MD -MP -MF .deps/base-pairing.Tpo -c -o base-pairing.lo base-pairing.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT base-pairing.lo -MD -MP -MF .deps/base-pairing.Tpo -c base-pairing.cc -fPIC -DPIC -o .libs/base-pairing.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rotamer.lo -MD -MP -MF .deps/rotamer.Tpo -c rotamer.cc -o rotamer.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT base-pairing.lo -MD -MP -MF .deps/base-pairing.Tpo -c base-pairing.cc -o base-pairing.o >/dev/null 2>&1 mv -f .deps/ligand.Tpo .deps/ligand.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT backrub-rotamer.lo -MD -MP -MF .deps/backrub-rotamer.Tpo -c -o backrub-rotamer.lo backrub-rotamer.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT backrub-rotamer.lo -MD -MP -MF .deps/backrub-rotamer.Tpo -c backrub-rotamer.cc -fPIC -DPIC -o .libs/backrub-rotamer.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dipole.lo -MD -MP -MF .deps/dipole.Tpo -c dipole.cc -o dipole.o >/dev/null 2>&1 mv -f .deps/base-pairing.Tpo .deps/base-pairing.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT trace.lo -MD -MP -MF .deps/trace.Tpo -c -o trace.lo trace.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT trace.lo -MD -MP -MF .deps/trace.Tpo -c trace.cc -fPIC -DPIC -o .libs/trace.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT primitive-chi-angles.lo -MD -MP -MF .deps/primitive-chi-angles.Tpo -c primitive-chi-angles.cc -o primitive-chi-angles.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rotamer-tables.lo -MD -MP -MF .deps/rotamer-tables.Tpo -c rotamer-tables.cc -o rotamer-tables.o >/dev/null 2>&1 mv -f .deps/dipole.Tpo .deps/dipole.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT trace-2.lo -MD -MP -MF .deps/trace-2.Tpo -c -o trace-2.lo trace-2.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT trace-2.lo -MD -MP -MF .deps/trace-2.Tpo -c trace-2.cc -fPIC -DPIC -o .libs/trace-2.o mv -f .deps/rotamer.Tpo .deps/rotamer.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT multi-peptide.lo -MD -MP -MF .deps/multi-peptide.Tpo -c -o multi-peptide.lo multi-peptide.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT multi-peptide.lo -MD -MP -MF .deps/multi-peptide.Tpo -c multi-peptide.cc -fPIC -DPIC -o .libs/multi-peptide.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT chi-angles-autogen.lo -MD -MP -MF .deps/chi-angles-autogen.Tpo -c chi-angles-autogen.cc -o chi-angles-autogen.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT backrub-rotamer.lo -MD -MP -MF .deps/backrub-rotamer.Tpo -c backrub-rotamer.cc -o backrub-rotamer.o >/dev/null 2>&1 mv -f .deps/primitive-chi-angles.Tpo .deps/primitive-chi-angles.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ligands-db.lo -MD -MP -MF .deps/ligands-db.Tpo -c -o ligands-db.lo ligands-db.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT trace-2.lo -MD -MP -MF .deps/trace-2.Tpo -c trace-2.cc -o trace-2.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ligands-db.lo -MD -MP -MF .deps/ligands-db.Tpo -c ligands-db.cc -fPIC -DPIC -o .libs/ligands-db.o In file included from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/cell.h:50:0, from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/coords.h:49, from ../coot-utils/coot-coord-utils.hh:43, from trace.cc:25: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/clipper_types.h: In member function 'void coot::trace::move_seeds_close_to_origin(std::vector*) const': /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/clipper_types.h:230:45: warning: '*((void*)& rtop_best +88)' may be used uninitialized in this function [-Wmaybe-uninitialized] m(2,0)*v[0]+m(2,1)*v[1]+m(2,2)*v[2] ); } ^ trace.cc:222:22: note: '*((void*)& rtop_best +88)' was declared here clipper::RTop_orth rtop_best; ^ In file included from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/cell.h:50:0, from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/coords.h:49, from ../coot-utils/coot-coord-utils.hh:43, from trace.cc:25: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/clipper_types.h:230:45: warning: '*((void*)& rtop_best +80)' may be used uninitialized in this function [-Wmaybe-uninitialized] m(2,0)*v[0]+m(2,1)*v[1]+m(2,2)*v[2] ); } ^ trace.cc:222:22: note: '*((void*)& rtop_best +80)' was declared here clipper::RTop_orth rtop_best; ^ In file included from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/cell.h:50:0, from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/coords.h:49, from ../coot-utils/coot-coord-utils.hh:43, from trace.cc:25: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/clipper_types.h:230:45: warning: '*((void*)& rtop_best +72)' may be used uninitialized in this function [-Wmaybe-uninitialized] m(2,0)*v[0]+m(2,1)*v[1]+m(2,2)*v[2] ); } ^ trace.cc:222:22: note: '*((void*)& rtop_best +72)' was declared here clipper::RTop_orth rtop_best; ^ In file included from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/cell.h:50:0, from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/coords.h:49, from ../coot-utils/coot-coord-utils.hh:43, from trace.cc:25: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/clipper_types.h:230:45: warning: '*((void*)& rtop_best +64)' may be used uninitialized in this function [-Wmaybe-uninitialized] m(2,0)*v[0]+m(2,1)*v[1]+m(2,2)*v[2] ); } ^ trace.cc:222:22: note: '*((void*)& rtop_best +64)' was declared here clipper::RTop_orth rtop_best; ^ In file included from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/cell.h:50:0, from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/coords.h:49, from ../coot-utils/coot-coord-utils.hh:43, from trace.cc:25: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/clipper_types.h:230:45: warning: '*((void*)& rtop_best +56)' may be used uninitialized in this function [-Wmaybe-uninitialized] m(2,0)*v[0]+m(2,1)*v[1]+m(2,2)*v[2] ); } ^ trace.cc:222:22: note: '*((void*)& rtop_best +56)' was declared here clipper::RTop_orth rtop_best; ^ In file included from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/cell.h:50:0, from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/coords.h:49, from ../coot-utils/coot-coord-utils.hh:43, from trace.cc:25: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/clipper_types.h:230:45: warning: '*((void*)& rtop_best +48)' may be used uninitialized in this function [-Wmaybe-uninitialized] m(2,0)*v[0]+m(2,1)*v[1]+m(2,2)*v[2] ); } ^ trace.cc:222:22: note: '*((void*)& rtop_best +48)' was declared here clipper::RTop_orth rtop_best; ^ In file included from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/cell.h:50:0, from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/coords.h:49, from ../coot-utils/coot-coord-utils.hh:43, from trace.cc:25: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/clipper_types.h:230:45: warning: '*((void*)& rtop_best +40)' may be used uninitialized in this function [-Wmaybe-uninitialized] m(2,0)*v[0]+m(2,1)*v[1]+m(2,2)*v[2] ); } ^ trace.cc:222:22: note: '*((void*)& rtop_best +40)' was declared here clipper::RTop_orth rtop_best; ^ In file included from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/cell.h:50:0, from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/coords.h:49, from ../coot-utils/coot-coord-utils.hh:43, from trace.cc:25: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/clipper_types.h:230:45: warning: '*((void*)& rtop_best +32)' may be used uninitialized in this function [-Wmaybe-uninitialized] m(2,0)*v[0]+m(2,1)*v[1]+m(2,2)*v[2] ); } ^ trace.cc:222:22: note: '*((void*)& rtop_best +32)' was declared here clipper::RTop_orth rtop_best; ^ In file included from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/cell.h:50:0, from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/coords.h:49, from ../coot-utils/coot-coord-utils.hh:43, from trace.cc:25: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/clipper_types.h:230:45: warning: '*((void*)& rtop_best +24)' may be used uninitialized in this function [-Wmaybe-uninitialized] m(2,0)*v[0]+m(2,1)*v[1]+m(2,2)*v[2] ); } ^ trace.cc:222:22: note: '*((void*)& rtop_best +24)' was declared here clipper::RTop_orth rtop_best; ^ In file included from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/cell.h:50:0, from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/coords.h:49, from ../coot-utils/coot-coord-utils.hh:43, from trace.cc:25: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/clipper_types.h:230:45: warning: '*((void*)& rtop_best +16)' may be used uninitialized in this function [-Wmaybe-uninitialized] m(2,0)*v[0]+m(2,1)*v[1]+m(2,2)*v[2] ); } ^ trace.cc:222:22: note: '*((void*)& rtop_best +16)' was declared here clipper::RTop_orth rtop_best; ^ In file included from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/cell.h:50:0, from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/coords.h:49, from ../coot-utils/coot-coord-utils.hh:43, from trace.cc:25: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/clipper_types.h:230:45: warning: '*((void*)& rtop_best +8)' may be used uninitialized in this function [-Wmaybe-uninitialized] m(2,0)*v[0]+m(2,1)*v[1]+m(2,2)*v[2] ); } ^ trace.cc:222:22: note: '*((void*)& rtop_best +8)' was declared here clipper::RTop_orth rtop_best; ^ In file included from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/cell.h:50:0, from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/coords.h:49, from ../coot-utils/coot-coord-utils.hh:43, from trace.cc:25: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/clipper/core/clipper_types.h:230:45: warning: 'rtop_best' may be used uninitialized in this function [-Wmaybe-uninitialized] m(2,0)*v[0]+m(2,1)*v[1]+m(2,2)*v[2] ); } ^ trace.cc:222:22: note: 'rtop_best' was declared here clipper::RTop_orth rtop_best; ^ mv -f .deps/trace-2.Tpo .deps/trace-2.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT joining-residues.lo -MD -MP -MF .deps/joining-residues.Tpo -c -o joining-residues.lo joining-residues.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT joining-residues.lo -MD -MP -MF .deps/joining-residues.Tpo -c joining-residues.cc -fPIC -DPIC -o .libs/joining-residues.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT trace.lo -MD -MP -MF .deps/trace.Tpo -c trace.cc -o trace.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ligands-db.lo -MD -MP -MF .deps/ligands-db.Tpo -c ligands-db.cc -o ligands-db.o >/dev/null 2>&1 mv -f .deps/rotamer-tables.Tpo .deps/rotamer-tables.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ligand-score-card.lo -MD -MP -MF .deps/ligand-score-card.Tpo -c -o ligand-score-card.lo ligand-score-card.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ligand-score-card.lo -MD -MP -MF .deps/ligand-score-card.Tpo -c ligand-score-card.cc -fPIC -DPIC -o .libs/ligand-score-card.o mv -f .deps/backrub-rotamer.Tpo .deps/backrub-rotamer.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT side-chain-densities.lo -MD -MP -MF .deps/side-chain-densities.Tpo -c -o side-chain-densities.lo side-chain-densities.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT ligand-score-card.lo -MD -MP -MF .deps/ligand-score-card.Tpo -c ligand-score-card.cc -o ligand-score-card.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT side-chain-densities.lo -MD -MP -MF .deps/side-chain-densities.Tpo -c side-chain-densities.cc -fPIC -DPIC -o .libs/side-chain-densities.o mv -f .deps/ligand-score-card.Tpo .deps/ligand-score-card.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT tube-finder.lo -MD -MP -MF .deps/tube-finder.Tpo -c -o tube-finder.lo tube-finder.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT tube-finder.lo -MD -MP -MF .deps/tube-finder.Tpo -c tube-finder.cc -fPIC -DPIC -o .libs/tube-finder.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT richardson-rotamers.lo -MD -MP -MF .deps/richardson-rotamers.Tpo -c richardson-rotamers.cc -o richardson-rotamers.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT joining-residues.lo -MD -MP -MF .deps/joining-residues.Tpo -c joining-residues.cc -o joining-residues.o >/dev/null 2>&1 mv -f .deps/ligands-db.Tpo .deps/ligands-db.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT smith-waterman.lo -MD -MP -MF .deps/smith-waterman.Tpo -c -o smith-waterman.lo smith-waterman.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT smith-waterman.lo -MD -MP -MF .deps/smith-waterman.Tpo -c smith-waterman.cc -fPIC -DPIC -o .libs/smith-waterman.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT multi-peptide.lo -MD -MP -MF .deps/multi-peptide.Tpo -c multi-peptide.cc -o multi-peptide.o >/dev/null 2>&1 mv -f .deps/chi-angles-autogen.Tpo .deps/chi-angles-autogen.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT side-chain.lo -MD -MP -MF .deps/side-chain.Tpo -c -o side-chain.lo side-chain.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT side-chain.lo -MD -MP -MF .deps/side-chain.Tpo -c side-chain.cc -fPIC -DPIC -o .libs/side-chain.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT tube-finder.lo -MD -MP -MF .deps/tube-finder.Tpo -c tube-finder.cc -o tube-finder.o >/dev/null 2>&1 mv -f .deps/joining-residues.Tpo .deps/joining-residues.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT refine-isolated-chain.lo -MD -MP -MF .deps/refine-isolated-chain.Tpo -c -o refine-isolated-chain.lo refine-isolated-chain.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT refine-isolated-chain.lo -MD -MP -MF .deps/refine-isolated-chain.Tpo -c refine-isolated-chain.cc -fPIC -DPIC -o .libs/refine-isolated-chain.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT side-chain.lo -MD -MP -MF .deps/side-chain.Tpo -c side-chain.cc -o side-chain.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT smith-waterman.lo -MD -MP -MF .deps/smith-waterman.Tpo -c smith-waterman.cc -o smith-waterman.o >/dev/null 2>&1 mv -f .deps/trace.Tpo .deps/trace.Plo g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT find-ligand.o -MD -MP -MF .deps/find-ligand.Tpo -c -o find-ligand.o find-ligand.cc mv -f .deps/side-chain.Tpo .deps/side-chain.Plo g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT find-waters.o -MD -MP -MF .deps/find-waters.Tpo -c -o find-waters.o find-waters.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT refine-isolated-chain.lo -MD -MP -MF .deps/refine-isolated-chain.Tpo -c refine-isolated-chain.cc -o refine-isolated-chain.o >/dev/null 2>&1 mv -f .deps/tube-finder.Tpo .deps/tube-finder.Plo g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT make-ligands-db.o -MD -MP -MF .deps/make-ligands-db.Tpo -c -o make-ligands-db.o make-ligands-db.cc mv -f .deps/make-ligands-db.Tpo .deps/make-ligands-db.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT identify-protein.o -MD -MP -MF .deps/identify-protein.Tpo -c -o identify-protein.o identify-protein.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT side-chain-densities.lo -MD -MP -MF .deps/side-chain-densities.Tpo -c side-chain-densities.cc -o side-chain-densities.o >/dev/null 2>&1 mv -f .deps/richardson-rotamers.Tpo .deps/richardson-rotamers.Plo mv -f .deps/smith-waterman.Tpo .deps/smith-waterman.Plo mv -f .deps/find-waters.Tpo .deps/find-waters.Po mv -f .deps/multi-peptide.Tpo .deps/multi-peptide.Plo mv -f .deps/identify-protein.Tpo .deps/identify-protein.Po mv -f .deps/refine-isolated-chain.Tpo .deps/refine-isolated-chain.Plo mv -f .deps/find-ligand.Tpo .deps/find-ligand.Po mv -f .deps/side-chain-densities.Tpo .deps/side-chain-densities.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-ligand.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib ligand.lo ligand-extras.lo residue_by_phi_psi.lo wiggly-ligand.lo monomer-utils.lo dunbrack.lo chi-angles-autogen.lo chi-angles.lo helix-placement.lo fast-ss-search.lo rigid-body.lo ideal-rna.lo richardson-rotamers.lo richardson-rotamer.lo rotamer.lo torsion-general.lo rotamer-tables.lo primitive-chi-angles.lo dipole.lo base-pairing.lo backrub-rotamer.lo trace.lo trace-2.lo multi-peptide.lo ligands-db.lo joining-residues.lo ligand-score-card.lo side-chain-densities.lo tube-finder.lo smith-waterman.lo side-chain.lo refine-isolated-chain.lo ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../cootaneer/libcootaneer.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-map-utils.la ../analysis/libcoot-analysis.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lsqlite3 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -lpthread libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/ligand.o .libs/ligand-extras.o .libs/residue_by_phi_psi.o .libs/wiggly-ligand.o .libs/monomer-utils.o .libs/dunbrack.o .libs/chi-angles-autogen.o .libs/chi-angles.o .libs/helix-placement.o .libs/fast-ss-search.o .libs/rigid-body.o .libs/ideal-rna.o .libs/richardson-rotamers.o .libs/richardson-rotamer.o .libs/rotamer.o .libs/torsion-general.o .libs/rotamer-tables.o .libs/primitive-chi-angles.o .libs/dipole.o .libs/base-pairing.o .libs/backrub-rotamer.o .libs/trace.o .libs/trace-2.o .libs/multi-peptide.o .libs/ligands-db.o .libs/joining-residues.o .libs/ligand-score-card.o .libs/side-chain-densities.o .libs/tube-finder.o .libs/smith-waterman.o .libs/side-chain.o .libs/refine-isolated-chain.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ../ideal/.libs/libcoot-ideal.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-utils.so ../cootaneer/.libs/libcootaneer.so ../db-main/.libs/libcoot-db-main.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng15 ../geometry/.libs/libcoot-geometry.so ../mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../analysis/.libs/libcoot-analysis.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil -lpthread -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -fopenmp -O3 -Wl,-export-dynamic -fopenmp -Wl,-soname -Wl,libcoot-ligand.so.0 -o .libs/libcoot-ligand.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-ligand.so.0" && ln -s "libcoot-ligand.so.0.0.0" "libcoot-ligand.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-ligand.so" && ln -s "libcoot-ligand.so.0.0.0" "libcoot-ligand.so") libtool: link: ar cru .libs/libcoot-ligand.a ligand.o ligand-extras.o residue_by_phi_psi.o wiggly-ligand.o monomer-utils.o dunbrack.o chi-angles-autogen.o chi-angles.o helix-placement.o fast-ss-search.o rigid-body.o ideal-rna.o richardson-rotamers.o richardson-rotamer.o rotamer.o torsion-general.o rotamer-tables.o primitive-chi-angles.o dipole.o base-pairing.o backrub-rotamer.o trace.o trace-2.o multi-peptide.o ligands-db.o joining-residues.o ligand-score-card.o side-chain-densities.o tube-finder.o smith-waterman.o side-chain.o refine-isolated-chain.o libtool: link: ranlib .libs/libcoot-ligand.a libtool: link: ( cd ".libs" && rm -f "libcoot-ligand.la" && ln -s "../libcoot-ligand.la" "libcoot-ligand.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o findligand-bin find-ligand.o ./libcoot-ligand.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-coord-extras.la ../cootaneer/libcootaneer.la ../utils/libcoot-utils.la ../lidia-core/libcoot-lidia-core.la ../mini-mol/libcoot-mini-mol.la ../analysis/libcoot-analysis.la ../compat/libcoot-compat.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o findwaters-bin find-waters.o ./libcoot-ligand.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../coot-utils/libcoot-map-utils.la ../geometry/libcoot-geometry.la ../ccp4mg-utils/libccp4mg-utils.la ../db-main/libcoot-db-main.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../cootaneer/libcootaneer.la ../lidia-core/libcoot-lidia-core.la ../mini-mol/libcoot-mini-mol.la ../analysis/libcoot-analysis.la ../compat/libcoot-compat.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o coot-make-ligands-db make-ligands-db.o ./libcoot-ligand.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-coord-extras.la ../cootaneer/libcootaneer.la ../utils/libcoot-utils.la ../lidia-core/libcoot-lidia-core.la ../mini-mol/libcoot-mini-mol.la ../analysis/libcoot-analysis.la ../compat/libcoot-compat.la /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -fopenmp -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o identify-protein-bin identify-protein.o ./libcoot-ligand.la ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 libtool: link: g++ -std=gnu++11 -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o .libs/identify-protein-bin identify-protein.o ./.libs/libcoot-ligand.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs/libcootaneer.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs/libcoot-db-main.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs/libccp4mg-utils.so -lpng15 /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-extras.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs/libcoot-analysis.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil ../geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lm -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -fopenmp -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib libtool: link: g++ -std=gnu++11 -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o .libs/coot-make-ligands-db make-ligands-db.o ./.libs/libcoot-ligand.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs/libcootaneer.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs/libcoot-db-main.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs/libccp4mg-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs/libcoot-analysis.so ../ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-utils.so ../geometry/.libs/libcoot-geometry.so ../db-main/.libs/libcoot-db-main.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng15 ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-coord-extras.so ../cootaneer/.libs/libcootaneer.so ../utils/.libs/libcoot-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../mini-mol/.libs/libcoot-mini-mol.so ../analysis/.libs/libcoot-analysis.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lm -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil ../compat/.libs/libcoot-compat.so -fopenmp -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib libtool: link: g++ -std=gnu++11 -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o .libs/findligand-bin find-ligand.o -Wl,-export-dynamic ./.libs/libcoot-ligand.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs/libcootaneer.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs/libcoot-db-main.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs/libccp4mg-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs/libcoot-analysis.so ../ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-utils.so ../geometry/.libs/libcoot-geometry.so ../db-main/.libs/libcoot-db-main.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng15 ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-coord-extras.so ../cootaneer/.libs/libcootaneer.so ../utils/.libs/libcoot-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../mini-mol/.libs/libcoot-mini-mol.so ../analysis/.libs/libcoot-analysis.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so ../compat/.libs/libcoot-compat.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lm -fopenmp -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib libtool: link: g++ -std=gnu++11 -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o .libs/findwaters-bin find-waters.o -Wl,-export-dynamic ./.libs/libcoot-ligand.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs/libcootaneer.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs/libcoot-db-main.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs/libccp4mg-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs/libcoot-analysis.so ../ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../geometry/.libs/libcoot-geometry.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng15 ../db-main/.libs/libcoot-db-main.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../utils/.libs/libcoot-utils.so ../cootaneer/.libs/libcootaneer.so ../lidia-core/.libs/libcoot-lidia-core.so ../mini-mol/.libs/libcoot-mini-mol.so ../analysis/.libs/libcoot-analysis.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so ../compat/.libs/libcoot-compat.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lm -fopenmp -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand' Making all in coords make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coords' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT Bond_lines.lo -MD -MP -MF .deps/Bond_lines.Tpo -c -o Bond_lines.lo Bond_lines.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT Cartesian.lo -MD -MP -MF .deps/Cartesian.Tpo -c -o Cartesian.lo Cartesian.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cos-sin.lo -MD -MP -MF .deps/cos-sin.Tpo -c -o cos-sin.lo cos-sin.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT phenix-geo-bonds.lo -MD -MP -MF .deps/phenix-geo-bonds.Tpo -c -o phenix-geo-bonds.lo phenix-geo-bonds.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mmdb-extras.lo -MD -MP -MF .deps/mmdb-extras.Tpo -c -o mmdb-extras.lo mmdb-extras.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT utils.lo -MD -MP -MF .deps/utils.Tpo -c -o utils.lo utils.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mmdb.lo -MD -MP -MF .deps/mmdb.Tpo -c -o mmdb.lo mmdb.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mmdb-crystal.lo -MD -MP -MF .deps/mmdb-crystal.Tpo -c -o mmdb-crystal.lo mmdb-crystal.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mmdb-extras.lo -MD -MP -MF .deps/mmdb-extras.Tpo -c mmdb-extras.cc -fPIC -DPIC -o .libs/mmdb-extras.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mmdb.lo -MD -MP -MF .deps/mmdb.Tpo -c mmdb.cc -fPIC -DPIC -o .libs/mmdb.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT Cartesian.lo -MD -MP -MF .deps/Cartesian.Tpo -c Cartesian.cc -fPIC -DPIC -o .libs/Cartesian.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT phenix-geo-bonds.lo -MD -MP -MF .deps/phenix-geo-bonds.Tpo -c phenix-geo-bonds.cc -fPIC -DPIC -o .libs/phenix-geo-bonds.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT utils.lo -MD -MP -MF .deps/utils.Tpo -c utils.cc -fPIC -DPIC -o .libs/utils.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mmdb-crystal.lo -MD -MP -MF .deps/mmdb-crystal.Tpo -c mmdb-crystal.cc -fPIC -DPIC -o .libs/mmdb-crystal.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT Bond_lines.lo -MD -MP -MF .deps/Bond_lines.Tpo -c Bond_lines.cc -fPIC -DPIC -o .libs/Bond_lines.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cos-sin.lo -MD -MP -MF .deps/cos-sin.Tpo -c cos-sin.cc -fPIC -DPIC -o .libs/cos-sin.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT utils.lo -MD -MP -MF .deps/utils.Tpo -c utils.cc -o utils.o >/dev/null 2>&1 mv -f .deps/utils.Tpo .deps/utils.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT Bond_lines_ext.lo -MD -MP -MF .deps/Bond_lines_ext.Tpo -c -o Bond_lines_ext.lo Bond_lines_ext.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cos-sin.lo -MD -MP -MF .deps/cos-sin.Tpo -c cos-sin.cc -o cos-sin.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT Bond_lines_ext.lo -MD -MP -MF .deps/Bond_lines_ext.Tpo -c Bond_lines_ext.cc -fPIC -DPIC -o .libs/Bond_lines_ext.o mv -f .deps/cos-sin.Tpo .deps/cos-sin.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-close.lo -MD -MP -MF .deps/coot-close.Tpo -c -o coot-close.lo coot-close.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT Cartesian.lo -MD -MP -MF .deps/Cartesian.Tpo -c Cartesian.cc -o Cartesian.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-close.lo -MD -MP -MF .deps/coot-close.Tpo -c coot-close.cc -fPIC -DPIC -o .libs/coot-close.o mv -f .deps/Cartesian.Tpo .deps/Cartesian.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT phenix-geo.lo -MD -MP -MF .deps/phenix-geo.Tpo -c -o phenix-geo.lo phenix-geo.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT phenix-geo.lo -MD -MP -MF .deps/phenix-geo.Tpo -c phenix-geo.cc -fPIC -DPIC -o .libs/phenix-geo.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mmdb-extras.lo -MD -MP -MF .deps/mmdb-extras.Tpo -c mmdb-extras.cc -o mmdb-extras.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-close.lo -MD -MP -MF .deps/coot-close.Tpo -c coot-close.cc -o coot-close.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT Bond_lines_ext.lo -MD -MP -MF .deps/Bond_lines_ext.Tpo -c Bond_lines_ext.cc -o Bond_lines_ext.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT phenix-geo.lo -MD -MP -MF .deps/phenix-geo.Tpo -c phenix-geo.cc -o phenix-geo.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mmdb-crystal.lo -MD -MP -MF .deps/mmdb-crystal.Tpo -c mmdb-crystal.cc -o mmdb-crystal.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT phenix-geo-bonds.lo -MD -MP -MF .deps/phenix-geo-bonds.Tpo -c phenix-geo-bonds.cc -o phenix-geo-bonds.o >/dev/null 2>&1 mv -f .deps/coot-close.Tpo .deps/coot-close.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rotamer-markup.lo -MD -MP -MF .deps/rotamer-markup.Tpo -c -o rotamer-markup.lo rotamer-markup.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rotamer-markup.lo -MD -MP -MF .deps/rotamer-markup.Tpo -c rotamer-markup.cc -fPIC -DPIC -o .libs/rotamer-markup.o mv -f .deps/phenix-geo.Tpo .deps/phenix-geo.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT loop-path.lo -MD -MP -MF .deps/loop-path.Tpo -c -o loop-path.lo loop-path.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT loop-path.lo -MD -MP -MF .deps/loop-path.Tpo -c loop-path.cc -fPIC -DPIC -o .libs/loop-path.o mv -f .deps/mmdb-extras.Tpo .deps/mmdb-extras.Plo mv -f .deps/Bond_lines_ext.Tpo .deps/Bond_lines_ext.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT loop-path.lo -MD -MP -MF .deps/loop-path.Tpo -c loop-path.cc -o loop-path.o >/dev/null 2>&1 mv -f .deps/loop-path.Tpo .deps/loop-path.Plo mv -f .deps/mmdb-crystal.Tpo .deps/mmdb-crystal.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rotamer-markup.lo -MD -MP -MF .deps/rotamer-markup.Tpo -c rotamer-markup.cc -o rotamer-markup.o >/dev/null 2>&1 mv -f .deps/phenix-geo-bonds.Tpo .deps/phenix-geo-bonds.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mmdb.lo -MD -MP -MF .deps/mmdb.Tpo -c mmdb.cc -o mmdb.o >/dev/null 2>&1 mv -f .deps/rotamer-markup.Tpo .deps/rotamer-markup.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT Bond_lines.lo -MD -MP -MF .deps/Bond_lines.Tpo -c Bond_lines.cc -o Bond_lines.o >/dev/null 2>&1 mv -f .deps/mmdb.Tpo .deps/mmdb.Plo mv -f .deps/Bond_lines.Tpo .deps/Bond_lines.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-coords.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib Bond_lines.lo Cartesian.lo cos-sin.lo phenix-geo-bonds.lo mmdb-extras.lo utils.lo mmdb.lo mmdb-crystal.lo Bond_lines_ext.lo coot-close.lo phenix-geo.lo rotamer-markup.lo loop-path.lo ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la ../geometry/libcoot-geometry.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../ligand/libcoot-ligand.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lpthread libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/Bond_lines.o .libs/Cartesian.o .libs/cos-sin.o .libs/phenix-geo-bonds.o .libs/mmdb-extras.o .libs/utils.o .libs/mmdb.o .libs/mmdb-crystal.o .libs/Bond_lines_ext.o .libs/coot-close.o .libs/phenix-geo.o .libs/rotamer-markup.o .libs/loop-path.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: ../geometry/.libs/libcoot-geometry.so ../coot-utils/.libs/libcoot-coord-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../ligand/.libs/libcoot-ligand.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs/libcootaneer.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs/libcoot-db-main.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs/libccp4mg-utils.so -lpng15 /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-extras.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs/libcoot-analysis.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -lpthread -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -fopenmp -Wl,-soname -Wl,libcoot-coords.so.0 -o .libs/libcoot-coords.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-coords.so.0" && ln -s "libcoot-coords.so.0.0.0" "libcoot-coords.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-coords.so" && ln -s "libcoot-coords.so.0.0.0" "libcoot-coords.so") libtool: link: ar cru .libs/libcoot-coords.a Bond_lines.o Cartesian.o cos-sin.o phenix-geo-bonds.o mmdb-extras.o utils.o mmdb.o mmdb-crystal.o Bond_lines_ext.o coot-close.o phenix-geo.o rotamer-markup.o loop-path.o libtool: link: ranlib .libs/libcoot-coords.a libtool: link: ( cd ".libs" && rm -f "libcoot-coords.la" && ln -s "../libcoot-coords.la" "libcoot-coords.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coords' Making all in density-contour make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/density-contour' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT Vectors.lo -MD -MP -MF .deps/Vectors.Tpo -c -o Vectors.lo Vectors.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT CIsoSurface.lo -MD -MP -MF .deps/CIsoSurface.Tpo -c -o CIsoSurface.lo CIsoSurface.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT density-contour-triangles.lo -MD -MP -MF .deps/density-contour-triangles.Tpo -c -o density-contour-triangles.lo density-contour-triangles.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT occlusion.lo -MD -MP -MF .deps/occlusion.Tpo -c -o occlusion.lo occlusion.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT Vectors.lo -MD -MP -MF .deps/Vectors.Tpo -c Vectors.cpp -fPIC -DPIC -o .libs/Vectors.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT CIsoSurface.lo -MD -MP -MF .deps/CIsoSurface.Tpo -c CIsoSurface.cpp -fPIC -DPIC -o .libs/CIsoSurface.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT density-contour-triangles.lo -MD -MP -MF .deps/density-contour-triangles.Tpo -c density-contour-triangles.cc -fPIC -DPIC -o .libs/density-contour-triangles.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT occlusion.lo -MD -MP -MF .deps/occlusion.Tpo -c occlusion.cc -fPIC -DPIC -o .libs/occlusion.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT Vectors.lo -MD -MP -MF .deps/Vectors.Tpo -c Vectors.cpp -o Vectors.o >/dev/null 2>&1 mv -f .deps/Vectors.Tpo .deps/Vectors.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT occlusion.lo -MD -MP -MF .deps/occlusion.Tpo -c occlusion.cc -o occlusion.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT density-contour-triangles.lo -MD -MP -MF .deps/density-contour-triangles.Tpo -c density-contour-triangles.cc -o density-contour-triangles.o >/dev/null 2>&1 mv -f .deps/occlusion.Tpo .deps/occlusion.Plo mv -f .deps/density-contour-triangles.Tpo .deps/density-contour-triangles.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT CIsoSurface.lo -MD -MP -MF .deps/CIsoSurface.Tpo -c CIsoSurface.cpp -o CIsoSurface.o >/dev/null 2>&1 mv -f .deps/CIsoSurface.Tpo .deps/CIsoSurface.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-isosurface.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib Vectors.lo CIsoSurface.lo density-contour-triangles.lo occlusion.lo ../coords/libcoot-coords.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/Vectors.o .libs/CIsoSurface.o .libs/density-contour-triangles.o .libs/occlusion.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coords/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ../coords/.libs/libcoot-coords.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs/libcoot-ligand.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs/libcootaneer.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs/libcoot-db-main.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs/libccp4mg-utils.so -lpng15 /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-extras.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs/libcoot-analysis.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -fopenmp -Wl,-soname -Wl,libcoot-isosurface.so.0 -o .libs/libcoot-isosurface.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-isosurface.so.0" && ln -s "libcoot-isosurface.so.0.0.0" "libcoot-isosurface.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-isosurface.so" && ln -s "libcoot-isosurface.so.0.0.0" "libcoot-isosurface.so") libtool: link: ar cru .libs/libcoot-isosurface.a Vectors.o CIsoSurface.o density-contour-triangles.o occlusion.o libtool: link: ranlib .libs/libcoot-isosurface.a libtool: link: ( cd ".libs" && rm -f "libcoot-isosurface.la" && ln -s "../libcoot-isosurface.la" "libcoot-isosurface.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/density-contour' Making all in skeleton make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/skeleton' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dm-utils.lo -MD -MP -MF .deps/dm-utils.Tpo -c -o dm-utils.lo dm-utils.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphical_skel.lo -MD -MP -MF .deps/graphical_skel.Tpo -c -o graphical_skel.lo graphical_skel.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT BuildCas.lo -MD -MP -MF .deps/BuildCas.Tpo -c -o BuildCas.lo BuildCas.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dm-utils.lo -MD -MP -MF .deps/dm-utils.Tpo -c dm-utils.cc -fPIC -DPIC -o .libs/dm-utils.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphical_skel.lo -MD -MP -MF .deps/graphical_skel.Tpo -c graphical_skel.cc -fPIC -DPIC -o .libs/graphical_skel.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT BuildCas.lo -MD -MP -MF .deps/BuildCas.Tpo -c BuildCas.cc -fPIC -DPIC -o .libs/BuildCas.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dm-utils.lo -MD -MP -MF .deps/dm-utils.Tpo -c dm-utils.cc -o dm-utils.o >/dev/null 2>&1 mv -f .deps/dm-utils.Tpo .deps/dm-utils.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphical_skel.lo -MD -MP -MF .deps/graphical_skel.Tpo -c graphical_skel.cc -o graphical_skel.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT BuildCas.lo -MD -MP -MF .deps/BuildCas.Tpo -c BuildCas.cc -o BuildCas.o >/dev/null 2>&1 mv -f .deps/graphical_skel.Tpo .deps/graphical_skel.Plo mv -f .deps/BuildCas.Tpo .deps/BuildCas.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-skeleton.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib dm-utils.lo graphical_skel.lo BuildCas.lo ../angles/libcoot-AngleInfo.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/dm-utils.o .libs/graphical_skel.o .libs/BuildCas.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/angles/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coords/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ../angles/.libs/libcoot-AngleInfo.so ../geometry/.libs/libcoot-geometry.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: ../coords/.libs/libcoot-coords.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs/libcoot-ligand.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs/libcootaneer.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs/libcoot-db-main.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs/libccp4mg-utils.so -lpng15 /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-extras.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs/libcoot-analysis.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -fopenmp -Wl,-soname -Wl,libcoot-skeleton.so.0 -o .libs/libcoot-skeleton.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-skeleton.so.0" && ln -s "libcoot-skeleton.so.0.0.0" "libcoot-skeleton.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-skeleton.so" && ln -s "libcoot-skeleton.so.0.0.0" "libcoot-skeleton.so") libtool: link: ar cru .libs/libcoot-skeleton.a dm-utils.o graphical_skel.o BuildCas.o libtool: link: ranlib .libs/libcoot-skeleton.a libtool: link: ( cd ".libs" && rm -f "libcoot-skeleton.la" && ln -s "../libcoot-skeleton.la" "libcoot-skeleton.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/skeleton' Making all in high-res make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/high-res' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT high-res.lo -MD -MP -MF .deps/high-res.Tpo -c -o high-res.lo high-res.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-atom-graph.lo -MD -MP -MF .deps/coot-atom-graph.Tpo -c -o coot-atom-graph.lo coot-atom-graph.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT residue-distortions.lo -MD -MP -MF .deps/residue-distortions.Tpo -c -o residue-distortions.lo residue-distortions.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT sequence-assignment.lo -MD -MP -MF .deps/sequence-assignment.Tpo -c -o sequence-assignment.lo sequence-assignment.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT high-res.lo -MD -MP -MF .deps/high-res.Tpo -c high-res.cc -fPIC -DPIC -o .libs/high-res.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT sequence-assignment.lo -MD -MP -MF .deps/sequence-assignment.Tpo -c sequence-assignment.cc -fPIC -DPIC -o .libs/sequence-assignment.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-atom-graph.lo -MD -MP -MF .deps/coot-atom-graph.Tpo -c coot-atom-graph.cc -fPIC -DPIC -o .libs/coot-atom-graph.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT residue-distortions.lo -MD -MP -MF .deps/residue-distortions.Tpo -c residue-distortions.cc -fPIC -DPIC -o .libs/residue-distortions.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT residue-distortions.lo -MD -MP -MF .deps/residue-distortions.Tpo -c residue-distortions.cc -o residue-distortions.o >/dev/null 2>&1 mv -f .deps/residue-distortions.Tpo .deps/residue-distortions.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT sequence-assignment.lo -MD -MP -MF .deps/sequence-assignment.Tpo -c sequence-assignment.cc -o sequence-assignment.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-atom-graph.lo -MD -MP -MF .deps/coot-atom-graph.Tpo -c coot-atom-graph.cc -o coot-atom-graph.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT high-res.lo -MD -MP -MF .deps/high-res.Tpo -c high-res.cc -o high-res.o >/dev/null 2>&1 mv -f .deps/sequence-assignment.Tpo .deps/sequence-assignment.Plo mv -f .deps/coot-atom-graph.Tpo .deps/coot-atom-graph.Plo mv -f .deps/high-res.Tpo .deps/high-res.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-high-res.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib high-res.lo coot-atom-graph.lo residue-distortions.lo sequence-assignment.lo ../coot-utils/libcoot-coord-utils.la ../coords/libcoot-coords.la ../ligand/libcoot-ligand.la ../coot-utils/libcoot-map-utils.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/high-res.o .libs/coot-atom-graph.o .libs/residue-distortions.o .libs/sequence-assignment.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coords/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ../coot-utils/.libs/libcoot-coord-utils.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: ../coords/.libs/libcoot-coords.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs/libcoot-ligand.so ../ligand/.libs/libcoot-ligand.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs/libcootaneer.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs/libcoot-db-main.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs/libccp4mg-utils.so -lpng15 /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-extras.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs/libcoot-analysis.so ../coot-utils/.libs/libcoot-map-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so ../mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -fopenmp -Wl,-soname -Wl,libcoot-high-res.so.0 -o .libs/libcoot-high-res.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-high-res.so.0" && ln -s "libcoot-high-res.so.0.0.0" "libcoot-high-res.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-high-res.so" && ln -s "libcoot-high-res.so.0.0.0" "libcoot-high-res.so") libtool: link: ar cru .libs/libcoot-high-res.a high-res.o coot-atom-graph.o residue-distortions.o sequence-assignment.o libtool: link: ranlib .libs/libcoot-high-res.a libtool: link: ( cd ".libs" && rm -f "libcoot-high-res.la" && ln -s "../libcoot-high-res.la" "libcoot-high-res.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/high-res' Making all in build make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/build' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT CalphaBuild.lo -MD -MP -MF .deps/CalphaBuild.Tpo -c -o CalphaBuild.lo CalphaBuild.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT CalphaBuild.lo -MD -MP -MF .deps/CalphaBuild.Tpo -c CalphaBuild.cc -fPIC -DPIC -o .libs/CalphaBuild.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT CalphaBuild.lo -MD -MP -MF .deps/CalphaBuild.Tpo -c CalphaBuild.cc -o CalphaBuild.o >/dev/null 2>&1 mv -f .deps/CalphaBuild.Tpo .deps/CalphaBuild.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-cabuild.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib CalphaBuild.lo ../angles/libcoot-AngleInfo.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/CalphaBuild.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/angles/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib ../angles/.libs/libcoot-AngleInfo.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-cabuild.so.0 -o .libs/libcoot-cabuild.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-cabuild.so.0" && ln -s "libcoot-cabuild.so.0.0.0" "libcoot-cabuild.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-cabuild.so" && ln -s "libcoot-cabuild.so.0.0.0" "libcoot-cabuild.so") libtool: link: ar cru .libs/libcoot-cabuild.a CalphaBuild.o libtool: link: ranlib .libs/libcoot-cabuild.a libtool: link: ( cd ".libs" && rm -f "libcoot-cabuild.la" && ln -s "../libcoot-cabuild.la" "libcoot-cabuild.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/build' Making all in greg-tests make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/greg-tests' make[1]: Nothing to be done for `all'. make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/greg-tests' Making all in python-tests make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/python-tests' make[1]: Nothing to be done for `all'. make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/python-tests' Making all in tw make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/tw' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT tw.lo -MD -MP -MF .deps/tw.Tpo -c -o tw.lo tw.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT tw.lo -MD -MP -MF .deps/tw.Tpo -c tw.cc -fPIC -DPIC -o .libs/tw.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT tw.lo -MD -MP -MF .deps/tw.Tpo -c tw.cc -o tw.o >/dev/null 2>&1 mv -f .deps/tw.Tpo .deps/tw.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-tw.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib tw.lo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/tw.o -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-tw.so.0 -o .libs/libcoot-tw.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-tw.so.0" && ln -s "libcoot-tw.so.0.0.0" "libcoot-tw.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-tw.so" && ln -s "libcoot-tw.so.0.0.0" "libcoot-tw.so") libtool: link: ar cru .libs/libcoot-tw.a tw.o libtool: link: ranlib .libs/libcoot-tw.a libtool: link: ( cd ".libs" && rm -f "libcoot-tw.la" && ln -s "../libcoot-tw.la" "libcoot-tw.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/tw' Making all in lbg make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lbg' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg.lo -MD -MP -MF .deps/lbg.Tpo -c -o lbg.lo lbg.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-flev.lo -MD -MP -MF .deps/lbg-flev.Tpo -c -o lbg-flev.lo lbg-flev.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT wmolecule.lo -MD -MP -MF .deps/wmolecule.Tpo -c -o wmolecule.lo wmolecule.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-search.lo -MD -MP -MF .deps/lbg-search.Tpo -c -o lbg-search.lo lbg-search.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT residue-circles.lo -MD -MP -MF .deps/residue-circles.Tpo -c -o residue-circles.lo residue-circles.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-drag-and-drop.lo -MD -MP -MF .deps/lbg-drag-and-drop.Tpo -c -o lbg-drag-and-drop.lo lbg-drag-and-drop.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT qed-interface.lo -MD -MP -MF .deps/qed-interface.Tpo -c -o qed-interface.lo qed-interface.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT alerts.lo -MD -MP -MF .deps/alerts.Tpo -c -o alerts.lo alerts.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-flev.lo -MD -MP -MF .deps/lbg-flev.Tpo -c lbg-flev.cc -fPIC -DPIC -o .libs/lbg-flev.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT wmolecule.lo -MD -MP -MF .deps/wmolecule.Tpo -c wmolecule.cc -fPIC -DPIC -o .libs/wmolecule.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-drag-and-drop.lo -MD -MP -MF .deps/lbg-drag-and-drop.Tpo -c lbg-drag-and-drop.cc -fPIC -DPIC -o .libs/lbg-drag-and-drop.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg.lo -MD -MP -MF .deps/lbg.Tpo -c lbg.cc -fPIC -DPIC -o .libs/lbg.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-search.lo -MD -MP -MF .deps/lbg-search.Tpo -c lbg-search.cc -fPIC -DPIC -o .libs/lbg-search.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT alerts.lo -MD -MP -MF .deps/alerts.Tpo -c alerts.cc -fPIC -DPIC -o .libs/alerts.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT residue-circles.lo -MD -MP -MF .deps/residue-circles.Tpo -c residue-circles.cc -fPIC -DPIC -o .libs/residue-circles.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT qed-interface.lo -MD -MP -MF .deps/qed-interface.Tpo -c qed-interface.cc -fPIC -DPIC -o .libs/qed-interface.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-search.lo -MD -MP -MF .deps/lbg-search.Tpo -c lbg-search.cc -o lbg-search.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT alerts.lo -MD -MP -MF .deps/alerts.Tpo -c alerts.cc -o alerts.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-drag-and-drop.lo -MD -MP -MF .deps/lbg-drag-and-drop.Tpo -c lbg-drag-and-drop.cc -o lbg-drag-and-drop.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT residue-circles.lo -MD -MP -MF .deps/residue-circles.Tpo -c residue-circles.cc -o residue-circles.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT qed-interface.lo -MD -MP -MF .deps/qed-interface.Tpo -c qed-interface.cc -o qed-interface.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-flev.lo -MD -MP -MF .deps/lbg-flev.Tpo -c lbg-flev.cc -o lbg-flev.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT wmolecule.lo -MD -MP -MF .deps/wmolecule.Tpo -c wmolecule.cc -o wmolecule.o >/dev/null 2>&1 mv -f .deps/lbg-drag-and-drop.Tpo .deps/lbg-drag-and-drop.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT alerts-list.lo -MD -MP -MF .deps/alerts-list.Tpo -c -o alerts-list.lo alerts-list.cc mv -f .deps/alerts.Tpo .deps/alerts.Plo /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT qed-properties.lo -MD -MP -MF .deps/qed-properties.Tpo -c -o qed-properties.lo qed-properties.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT alerts-list.lo -MD -MP -MF .deps/alerts-list.Tpo -c alerts-list.cc -fPIC -DPIC -o .libs/alerts-list.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT qed-properties.lo -MD -MP -MF .deps/qed-properties.Tpo -c qed-properties.cc -fPIC -DPIC -o .libs/qed-properties.o mv -f .deps/lbg-search.Tpo .deps/lbg-search.Plo g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lidia-main.o -MD -MP -MF .deps/lidia-main.Tpo -c -o lidia-main.o lidia-main.cc mv -f .deps/residue-circles.Tpo .deps/residue-circles.Plo g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-callbacks-outer.o -MD -MP -MF .deps/lbg-callbacks-outer.Tpo -c -o lbg-callbacks-outer.o lbg-callbacks-outer.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg.lo -MD -MP -MF .deps/lbg.Tpo -c lbg.cc -o lbg.o >/dev/null 2>&1 mv -f .deps/qed-interface.Tpo .deps/qed-interface.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT alerts-list.lo -MD -MP -MF .deps/alerts-list.Tpo -c alerts-list.cc -o alerts-list.o >/dev/null 2>&1 mv -f .deps/lbg-flev.Tpo .deps/lbg-flev.Plo mv -f .deps/lbg-callbacks-outer.Tpo .deps/lbg-callbacks-outer.Po mv -f .deps/lidia-main.Tpo .deps/lidia-main.Po mv -f .deps/wmolecule.Tpo .deps/wmolecule.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DMAKE_ENHANCED_LIGAND_TOOLS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT qed-properties.lo -MD -MP -MF .deps/qed-properties.Tpo -c qed-properties.cc -o qed-properties.o >/dev/null 2>&1 mv -f .deps/alerts-list.Tpo .deps/alerts-list.Plo mv -f .deps/qed-properties.Tpo .deps/qed-properties.Plo mv -f .deps/lbg.Tpo .deps/lbg.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-lidia.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib lbg.lo lbg-flev.lo wmolecule.lo lbg-search.lo residue-circles.lo lbg-drag-and-drop.lo qed-interface.lo alerts.lo alerts-list.lo qed-properties.lo ../utils/libcoot-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la ../coot-utils/libcoot-coord-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgoocanvas -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lcairo -lpango-1.0 -lfontconfig -lgobject-2.0 -lglib-2.0 -lfreetype -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/lbg.o .libs/lbg-flev.o .libs/wmolecule.o .libs/lbg-search.o .libs/residue-circles.o .libs/lbg-drag-and-drop.o .libs/qed-interface.o .libs/alerts.o .libs/alerts-list.o .libs/qed-properties.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs ../utils/.libs/libcoot-utils.so ../geometry/.libs/libcoot-geometry.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: ../mini-mol/.libs/libcoot-mini-mol.so ../lidia-core/.libs/libcoot-lidia-core.so ../coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgoocanvas.so -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lcairo -lpango-1.0 -lfontconfig -lgobject-2.0 -lglib-2.0 -lfreetype -lpython2.7 -lpthread -ldl -lutil -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-export-dynamic -Wl,-export-dynamic -Wl,-soname -Wl,libcoot-lidia.so.0 -o .libs/libcoot-lidia.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-lidia.so.0" && ln -s "libcoot-lidia.so.0.0.0" "libcoot-lidia.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-lidia.so" && ln -s "libcoot-lidia.so.0.0.0" "libcoot-lidia.so") libtool: link: ar cru .libs/libcoot-lidia.a lbg.o lbg-flev.o wmolecule.o lbg-search.o residue-circles.o lbg-drag-and-drop.o qed-interface.o alerts.o alerts-list.o qed-properties.o libtool: link: ranlib .libs/libcoot-lidia.a libtool: link: ( cd ".libs" && rm -f "libcoot-lidia.la" && ln -s "../libcoot-lidia.la" "libcoot-lidia.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -Wl,--export-dynamic -o lidia lidia-main.o lbg-callbacks-outer.o ./libcoot-lidia.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lcairo -lpango-1.0 -lfontconfig -lgobject-2.0 -lglib-2.0 -lfreetype -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil libtool: link: g++ -std=gnu++11 -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -Wl,--export-dynamic -o .libs/lidia lidia-main.o lbg-callbacks-outer.o -Wl,-export-dynamic -Wl,-export-dynamic ./.libs/libcoot-lidia.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgoocanvas.so ../geometry/.libs/libcoot-geometry.so ../mini-mol/.libs/libcoot-mini-mol.so ../coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so ../lidia-core/.libs/libcoot-lidia-core.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz ../utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lcairo -lpango-1.0 -lfontconfig -lgobject-2.0 -lglib-2.0 -lfreetype -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lm -lutil -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lbg' Making all in cootilus make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootilus' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT nucleicacid_db.lo -MD -MP -MF .deps/nucleicacid_db.Tpo -c -o nucleicacid_db.lo nucleicacid_db.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT nautilus-tools.lo -MD -MP -MF .deps/nautilus-tools.Tpo -c -o nautilus-tools.lo nautilus-tools.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT nautilus-ss-find.lo -MD -MP -MF .deps/nautilus-ss-find.Tpo -c -o nautilus-ss-find.lo nautilus-ss-find.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT nautilus-join.lo -MD -MP -MF .deps/nautilus-join.Tpo -c -o nautilus-join.lo nautilus-join.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT nautilus-target.lo -MD -MP -MF .deps/nautilus-target.Tpo -c -o nautilus-target.lo nautilus-target.cpp /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cootilus-build.lo -MD -MP -MF .deps/cootilus-build.Tpo -c -o cootilus-build.lo cootilus-build.cpp libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT nucleicacid_db.lo -MD -MP -MF .deps/nucleicacid_db.Tpo -c nucleicacid_db.cpp -fPIC -DPIC -o .libs/nucleicacid_db.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT nautilus-ss-find.lo -MD -MP -MF .deps/nautilus-ss-find.Tpo -c nautilus-ss-find.cpp -fPIC -DPIC -o .libs/nautilus-ss-find.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT nautilus-target.lo -MD -MP -MF .deps/nautilus-target.Tpo -c nautilus-target.cpp -fPIC -DPIC -o .libs/nautilus-target.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cootilus-build.lo -MD -MP -MF .deps/cootilus-build.Tpo -c cootilus-build.cpp -fPIC -DPIC -o .libs/cootilus-build.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT nautilus-join.lo -MD -MP -MF .deps/nautilus-join.Tpo -c nautilus-join.cpp -fPIC -DPIC -o .libs/nautilus-join.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT nautilus-tools.lo -MD -MP -MF .deps/nautilus-tools.Tpo -c nautilus-tools.cpp -fPIC -DPIC -o .libs/nautilus-tools.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT nautilus-ss-find.lo -MD -MP -MF .deps/nautilus-ss-find.Tpo -c nautilus-ss-find.cpp -o nautilus-ss-find.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT nucleicacid_db.lo -MD -MP -MF .deps/nucleicacid_db.Tpo -c nucleicacid_db.cpp -o nucleicacid_db.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT nautilus-tools.lo -MD -MP -MF .deps/nautilus-tools.Tpo -c nautilus-tools.cpp -o nautilus-tools.o >/dev/null 2>&1 mv -f .deps/nautilus-ss-find.Tpo .deps/nautilus-ss-find.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT nautilus-join.lo -MD -MP -MF .deps/nautilus-join.Tpo -c nautilus-join.cpp -o nautilus-join.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cootilus-build.lo -MD -MP -MF .deps/cootilus-build.Tpo -c cootilus-build.cpp -o cootilus-build.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT nautilus-target.lo -MD -MP -MF .deps/nautilus-target.Tpo -c nautilus-target.cpp -o nautilus-target.o >/dev/null 2>&1 mv -f .deps/nucleicacid_db.Tpo .deps/nucleicacid_db.Plo mv -f .deps/nautilus-tools.Tpo .deps/nautilus-tools.Plo mv -f .deps/nautilus-join.Tpo .deps/nautilus-join.Plo mv -f .deps/cootilus-build.Tpo .deps/cootilus-build.Plo mv -f .deps/nautilus-target.Tpo .deps/nautilus-target.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcootilus.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib nucleicacid_db.lo nautilus-tools.lo nautilus-ss-find.lo nautilus-join.lo nautilus-target.lo cootilus-build.lo -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/nucleicacid_db.o .libs/nautilus-tools.o .libs/nautilus-ss-find.o .libs/nautilus-join.o .libs/nautilus-target.o .libs/cootilus-build.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcootilus.so.0 -o .libs/libcootilus.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcootilus.so.0" && ln -s "libcootilus.so.0.0.0" "libcootilus.so.0") libtool: link: (cd ".libs" && rm -f "libcootilus.so" && ln -s "libcootilus.so.0.0.0" "libcootilus.so") libtool: link: ar cru .libs/libcootilus.a nucleicacid_db.o nautilus-tools.o nautilus-ss-find.o nautilus-join.o nautilus-target.o cootilus-build.o libtool: link: ranlib .libs/libcootilus.a libtool: link: ( cd ".libs" && rm -f "libcootilus.la" && ln -s "../libcootilus.la" "libcootilus.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootilus' Making all in goograph make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/goograph' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT goograph.lo -MD -MP -MF .deps/goograph.Tpo -c -o goograph.lo goograph.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT goograph.lo -MD -MP -MF .deps/goograph.Tpo -c goograph.cc -fPIC -DPIC -o .libs/goograph.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT goograph.lo -MD -MP -MF .deps/goograph.Tpo -c goograph.cc -o goograph.o >/dev/null 2>&1 mv -f .deps/goograph.Tpo .deps/goograph.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-goograph.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib goograph.lo ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgoocanvas -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lcairo -lpango-1.0 -lfontconfig -lgobject-2.0 -lglib-2.0 -lfreetype libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/goograph.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ../lidia-core/.libs/libcoot-lidia-core.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lutil /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz -ldl -lpthread ../utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgoocanvas.so -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lcairo -lpango-1.0 -lfontconfig -lgobject-2.0 -lglib-2.0 -lfreetype -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-goograph.so.0 -o .libs/libcoot-goograph.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-goograph.so.0" && ln -s "libcoot-goograph.so.0.0.0" "libcoot-goograph.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-goograph.so" && ln -s "libcoot-goograph.so.0.0.0" "libcoot-goograph.so") libtool: link: ar cru .libs/libcoot-goograph.a goograph.o libtool: link: ranlib .libs/libcoot-goograph.a libtool: link: ( cd ".libs" && rm -f "libcoot-goograph.la" && ln -s "../libcoot-goograph.la" "libcoot-goograph.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/goograph' Making all in pli make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pli' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein-ligand-interactions.lo -MD -MP -MF .deps/protein-ligand-interactions.Tpo -c -o protein-ligand-interactions.lo protein-ligand-interactions.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT flev-annotations.lo -MD -MP -MF .deps/flev-annotations.Tpo -c -o flev-annotations.lo flev-annotations.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pi-stacking.lo -MD -MP -MF .deps/pi-stacking.Tpo -c -o pi-stacking.lo pi-stacking.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT specs.lo -MD -MP -MF .deps/specs.Tpo -c -o specs.lo specs.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein-ligand-interactions.lo -MD -MP -MF .deps/protein-ligand-interactions.Tpo -c protein-ligand-interactions.cc -fPIC -DPIC -o .libs/protein-ligand-interactions.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT flev-annotations.lo -MD -MP -MF .deps/flev-annotations.Tpo -c flev-annotations.cc -fPIC -DPIC -o .libs/flev-annotations.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT specs.lo -MD -MP -MF .deps/specs.Tpo -c specs.cc -fPIC -DPIC -o .libs/specs.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pi-stacking.lo -MD -MP -MF .deps/pi-stacking.Tpo -c pi-stacking.cc -fPIC -DPIC -o .libs/pi-stacking.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT specs.lo -MD -MP -MF .deps/specs.Tpo -c specs.cc -o specs.o >/dev/null 2>&1 mv -f .deps/specs.Tpo .deps/specs.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT flev-annotations.lo -MD -MP -MF .deps/flev-annotations.Tpo -c flev-annotations.cc -o flev-annotations.o >/dev/null 2>&1 mv -f .deps/flev-annotations.Tpo .deps/flev-annotations.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein-ligand-interactions.lo -MD -MP -MF .deps/protein-ligand-interactions.Tpo -c protein-ligand-interactions.cc -o protein-ligand-interactions.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pi-stacking.lo -MD -MP -MF .deps/pi-stacking.Tpo -c pi-stacking.cc -o pi-stacking.o >/dev/null 2>&1 mv -f .deps/protein-ligand-interactions.Tpo .deps/protein-ligand-interactions.Plo mv -f .deps/pi-stacking.Tpo .deps/pi-stacking.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-pli.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib protein-ligand-interactions.lo flev-annotations.lo pi-stacking.lo specs.lo ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../lidia-core/libcoot-lidia-core.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/protein-ligand-interactions.o .libs/flev-annotations.o .libs/pi-stacking.o .libs/specs.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ../coot-utils/.libs/libcoot-coord-utils.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so ../geometry/.libs/libcoot-geometry.so ../lidia-core/.libs/libcoot-lidia-core.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-export-dynamic -Wl,-export-dynamic -Wl,-soname -Wl,libcoot-pli.so.0 -o .libs/libcoot-pli.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot-pli.so.0" && ln -s "libcoot-pli.so.0.0.0" "libcoot-pli.so.0") libtool: link: (cd ".libs" && rm -f "libcoot-pli.so" && ln -s "libcoot-pli.so.0.0.0" "libcoot-pli.so") libtool: link: ar cru .libs/libcoot-pli.a protein-ligand-interactions.o flev-annotations.o pi-stacking.o specs.o libtool: link: ranlib .libs/libcoot-pli.a libtool: link: ( cd ".libs" && rm -f "libcoot-pli.la" && ln -s "../libcoot-pli.la" "libcoot-pli.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pli' Making all in fonts make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/fonts' make[1]: Nothing to be done for `all'. make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/fonts' Making all in pyrogen make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pyrogen' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mmff-restraints.lo -MD -MP -MF .deps/mmff-restraints.Tpo -c -o mmff-restraints.lo mmff-restraints.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT py-restraints.lo -MD -MP -MF .deps/py-restraints.Tpo -c -o py-restraints.lo py-restraints.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cairo-molecule.lo -MD -MP -MF .deps/cairo-molecule.Tpo -c -o cairo-molecule.lo cairo-molecule.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pyrogen-swig.lo -MD -MP -MF .deps/pyrogen-swig.Tpo -c -o pyrogen-swig.lo pyrogen-swig.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT restraints.lo -MD -MP -MF .deps/restraints.Tpo -c -o restraints.lo restraints.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT restraints-boost.lo -MD -MP -MF .deps/restraints-boost.Tpo -c -o restraints-boost.lo restraints-boost.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT py-restraints.lo -MD -MP -MF .deps/py-restraints.Tpo -c py-restraints.cc -fPIC -DPIC -o .libs/py-restraints.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pyrogen-swig.lo -MD -MP -MF .deps/pyrogen-swig.Tpo -c pyrogen-swig.cc -fPIC -DPIC -o .libs/pyrogen-swig.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cairo-molecule.lo -MD -MP -MF .deps/cairo-molecule.Tpo -c cairo-molecule.cc -fPIC -DPIC -o .libs/cairo-molecule.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mmff-restraints.lo -MD -MP -MF .deps/mmff-restraints.Tpo -c mmff-restraints.cc -fPIC -DPIC -o .libs/mmff-restraints.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT restraints.lo -MD -MP -MF .deps/restraints.Tpo -c restraints.cc -fPIC -DPIC -o .libs/restraints.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT restraints-boost.lo -MD -MP -MF .deps/restraints-boost.Tpo -c restraints-boost.cc -fPIC -DPIC -o .libs/restraints-boost.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT mmff-restraints.lo -MD -MP -MF .deps/mmff-restraints.Tpo -c mmff-restraints.cc -o mmff-restraints.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cairo-molecule.lo -MD -MP -MF .deps/cairo-molecule.Tpo -c cairo-molecule.cc -o cairo-molecule.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT py-restraints.lo -MD -MP -MF .deps/py-restraints.Tpo -c py-restraints.cc -o py-restraints.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pyrogen-swig.lo -MD -MP -MF .deps/pyrogen-swig.Tpo -c pyrogen-swig.cc -o pyrogen-swig.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT restraints-boost.lo -MD -MP -MF .deps/restraints-boost.Tpo -c restraints-boost.cc -o restraints-boost.o >/dev/null 2>&1 mv -f .deps/mmff-restraints.Tpo .deps/mmff-restraints.Plo libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DMAKE_ENHANCED_LIGAND_TOOLS -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT restraints.lo -MD -MP -MF .deps/restraints.Tpo -c restraints.cc -o restraints.o >/dev/null 2>&1 mv -f .deps/cairo-molecule.Tpo .deps/cairo-molecule.Plo mv -f .deps/py-restraints.Tpo .deps/py-restraints.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot_py_restraints.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib mmff-restraints.lo py-restraints.lo cairo-molecule.lo ../geometry/libcoot-geometry.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -lcairo mv -f .deps/pyrogen-swig.Tpo .deps/pyrogen-swig.Plo libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/mmff-restraints.o .libs/py-restraints.o .libs/cairo-molecule.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ../geometry/.libs/libcoot-geometry.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: ../lidia-core/.libs/libcoot-lidia-core.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz ../utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lcairo -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-export-dynamic -Wl,-export-dynamic -Wl,-soname -Wl,libcoot_py_restraints.so.0 -o .libs/libcoot_py_restraints.so.0.0.0 libtool: link: (cd ".libs" && rm -f "libcoot_py_restraints.so.0" && ln -s "libcoot_py_restraints.so.0.0.0" "libcoot_py_restraints.so.0") libtool: link: (cd ".libs" && rm -f "libcoot_py_restraints.so" && ln -s "libcoot_py_restraints.so.0.0.0" "libcoot_py_restraints.so") libtool: link: ar cru .libs/libcoot_py_restraints.a mmff-restraints.o py-restraints.o cairo-molecule.o libtool: link: ranlib .libs/libcoot_py_restraints.a libtool: link: ( cd ".libs" && rm -f "libcoot_py_restraints.la" && ln -s "../libcoot_py_restraints.la" "libcoot_py_restraints.la" ) mv -f .deps/restraints-boost.Tpo .deps/restraints-boost.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -module -o pyrogen_boost.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages restraints-boost.lo libcoot_py_restraints.la ../pli/libcoot-pli.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../lidia-core/libcoot-lidia-core.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/restraints-boost.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pyrogen/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pli/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coords/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ./.libs/libcoot_py_restraints.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcairo ../pli/.libs/libcoot-pli.so ../ideal/.libs/libcoot-ideal.so ../coot-utils/.libs/libcoot-coord-utils.so ../geometry/.libs/libcoot-geometry.so ../coords/.libs/libcoot-coords.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs/libcoot-ligand.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs/libcootaneer.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs/libcoot-db-main.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs/libccp4mg-utils.so -lpng15 /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-extras.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs/libcoot-analysis.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so ../lidia-core/.libs/libcoot-lidia-core.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-export-dynamic -fopenmp -Wl,-soname -Wl,pyrogen_boost.so.0 -o .libs/pyrogen_boost.so.0.0.0 libtool: link: (cd ".libs" && rm -f "pyrogen_boost.so.0" && ln -s "pyrogen_boost.so.0.0.0" "pyrogen_boost.so.0") libtool: link: (cd ".libs" && rm -f "pyrogen_boost.so" && ln -s "pyrogen_boost.so.0.0.0" "pyrogen_boost.so") libtool: link: ar cru .libs/pyrogen_boost.a restraints-boost.o libtool: link: ranlib .libs/pyrogen_boost.a mv -f .deps/restraints.Tpo .deps/restraints.Plo /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -module -o _pyrogen_swig.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages pyrogen-swig.lo restraints.lo libcoot_py_restraints.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../analysis/libcoot-analysis.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -lcairo libtool: link: ( cd ".libs" && rm -f "pyrogen_boost.la" && ln -s "../pyrogen_boost.la" "pyrogen_boost.la" ) libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/pyrogen-swig.o .libs/restraints.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pyrogen/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ./.libs/libcoot_py_restraints.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: ../ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-extras.so -lpng15 ../coot-utils/.libs/libcoot-coord-utils.so ../lidia-core/.libs/libcoot-lidia-core.so ../analysis/.libs/libcoot-analysis.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so ../geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so ../utils/.libs/libcoot-utils.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -lpython2.7 -lpthread -ldl -lutil -lcairo -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-export-dynamic -Wl,-export-dynamic -Wl,-soname -Wl,_pyrogen_swig.so.0 -o .libs/_pyrogen_swig.so.0.0.0 libtool: link: (cd ".libs" && rm -f "_pyrogen_swig.so.0" && ln -s "_pyrogen_swig.so.0.0.0" "_pyrogen_swig.so.0") libtool: link: (cd ".libs" && rm -f "_pyrogen_swig.so" && ln -s "_pyrogen_swig.so.0.0.0" "_pyrogen_swig.so") libtool: link: ar cru .libs/_pyrogen_swig.a pyrogen-swig.o restraints.o libtool: link: ranlib .libs/_pyrogen_swig.a libtool: link: ( cd ".libs" && rm -f "_pyrogen_swig.la" && ln -s "../_pyrogen_swig.la" "_pyrogen_swig.la" ) make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pyrogen' Making all in src make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/src' /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-embedded.lo -MD -MP -MF .deps/coot-embedded.Tpo -c -o coot-embedded.lo coot-embedded.cc /bin/sh ../libtool --tag=CXX --mode=compile g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-extended.lo -MD -MP -MF .deps/coot-extended.Tpo -c -o coot-extended.lo coot-extended.cc g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT fix-nomenclature.o -MD -MP -MF .deps/fix-nomenclature.Tpo -c -o fix-nomenclature.o fix-nomenclature.cc g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-nomenclature.o -MD -MP -MF .deps/coot-nomenclature.Tpo -c -o coot-nomenclature.o coot-nomenclature.cc g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT main.o -MD -MP -MF .deps/main.Tpo -c -o main.o main.cc g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT boot-python.o -MD -MP -MF .deps/boot-python.Tpo -c -o boot-python.o boot-python.cc g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT atom-overlaps.o -MD -MP -MF .deps/atom-overlaps.Tpo -c -o atom-overlaps.o atom-overlaps.cc g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT git-revision-count.o -MD -MP -MF .deps/git-revision-count.Tpo -c -o git-revision-count.o git-revision-count.cc mv -f .deps/boot-python.Tpo .deps/boot-python.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT scm-boot-guile.o -MD -MP -MF .deps/scm-boot-guile.Tpo -c -o scm-boot-guile.o scm-boot-guile.cc mv -f .deps/git-revision-count.Tpo .deps/git-revision-count.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-analysis.o -MD -MP -MF .deps/c-interface-analysis.Tpo -c -o c-interface-analysis.o c-interface-analysis.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DPACKAGE_LOCALE_DIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale\" -DPKGPYTHONDIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-scientific-linux-7.9-python-gtk2\" "-DCOOT_BUILD_INFO_STRING=\"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-extended.lo -MD -MP -MF .deps/coot-extended.Tpo -c coot-extended.cc -fPIC -DPIC -o .libs/coot-extended.o libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DPACKAGE_LOCALE_DIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale\" -DPKGPYTHONDIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-scientific-linux-7.9-python-gtk2\" "-DCOOT_BUILD_INFO_STRING=\"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-embedded.lo -MD -MP -MF .deps/coot-embedded.Tpo -c coot-embedded.cc -fPIC -DPIC -o .libs/coot-embedded.o mv -f .deps/fix-nomenclature.Tpo .deps/fix-nomenclature.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-bonds.o -MD -MP -MF .deps/c-interface-bonds.Tpo -c -o c-interface-bonds.o c-interface-bonds.cc mv -f .deps/coot-nomenclature.Tpo .deps/coot-nomenclature.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-build.o -MD -MP -MF .deps/c-interface-build.Tpo -c -o c-interface-build.o c-interface-build.cc mv -f .deps/scm-boot-guile.Tpo .deps/scm-boot-guile.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-build-morph.o -MD -MP -MF .deps/c-interface-build-morph.Tpo -c -o c-interface-build-morph.o c-interface-build-morph.cc mv -f .deps/main.Tpo .deps/main.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-build-main-chain.o -MD -MP -MF .deps/c-interface-build-main-chain.Tpo -c -o c-interface-build-main-chain.o c-interface-build-main-chain.cc mv -f .deps/c-interface-analysis.Tpo .deps/c-interface-analysis.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-build-side-chain.o -MD -MP -MF .deps/c-interface-build-side-chain.Tpo -c -o c-interface-build-side-chain.o c-interface-build-side-chain.cc mv -f .deps/atom-overlaps.Tpo .deps/atom-overlaps.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-build-symmetry.o -MD -MP -MF .deps/c-interface-build-symmetry.Tpo -c -o c-interface-build-symmetry.o c-interface-build-symmetry.cc mv -f .deps/c-interface-bonds.Tpo .deps/c-interface-bonds.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-build-gui.o -MD -MP -MF .deps/c-interface-build-gui.Tpo -c -o c-interface-build-gui.o c-interface-build-gui.cc libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DPACKAGE_LOCALE_DIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale\" -DPKGPYTHONDIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-scientific-linux-7.9-python-gtk2\" "-DCOOT_BUILD_INFO_STRING=\"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-extended.lo -MD -MP -MF .deps/coot-extended.Tpo -c coot-extended.cc -o coot-extended.o >/dev/null 2>&1 libtool: compile: g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" "-DPACKAGE_STRING=\"coot 0.9.6.1-pre\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 "-DHAVE_BOOST=/**/" -DHAVE_PYTHON=\"2.7\" "-DHAVE_BOOST_PYTHON=/**/" -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DPACKAGE_LOCALE_DIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale\" -DPKGPYTHONDIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-scientific-linux-7.9-python-gtk2\" "-DCOOT_BUILD_INFO_STRING=\"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-embedded.lo -MD -MP -MF .deps/coot-embedded.Tpo -c coot-embedded.cc -o coot-embedded.o >/dev/null 2>&1 mv -f .deps/c-interface-build-morph.Tpo .deps/c-interface-build-morph.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-curlew.o -MD -MP -MF .deps/c-interface-curlew.Tpo -c -o c-interface-curlew.o c-interface-curlew.cc mv -f .deps/c-interface-build-main-chain.Tpo .deps/c-interface-build-main-chain.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-database.o -MD -MP -MF .deps/c-interface-database.Tpo -c -o c-interface-database.o c-interface-database.cc mv -f .deps/c-interface-database.Tpo .deps/c-interface-database.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-gui.o -MD -MP -MF .deps/c-interface-gui.Tpo -c -o c-interface-gui.o c-interface-gui.cc mv -f .deps/c-interface-build-side-chain.Tpo .deps/c-interface-build-side-chain.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-gtk2.o -MD -MP -MF .deps/c-interface-gtk2.Tpo -c -o c-interface-gtk2.o c-interface-gtk2.cc mv -f .deps/c-interface-build-symmetry.Tpo .deps/c-interface-build-symmetry.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-info.o -MD -MP -MF .deps/c-interface-info.Tpo -c -o c-interface-info.o c-interface-info.cc mv -f .deps/coot-extended.Tpo .deps/coot-extended.Plo g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-kk.o -MD -MP -MF .deps/c-interface-kk.Tpo -c -o c-interface-kk.o c-interface-kk.cc mv -f .deps/c-interface-build-gui.Tpo .deps/c-interface-build-gui.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-image.o -MD -MP -MF .deps/c-interface-image.Tpo -c -o c-interface-image.o c-interface-image.cc mv -f .deps/c-interface-build.Tpo .deps/c-interface-build.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-ligands-gui.o -MD -MP -MF .deps/c-interface-ligands-gui.Tpo -c -o c-interface-ligands-gui.o c-interface-ligands-gui.cc mv -f .deps/coot-embedded.Tpo .deps/coot-embedded.Plo g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-ligands.o -MD -MP -MF .deps/c-interface-ligands.Tpo -c -o c-interface-ligands.o c-interface-ligands.cc mv -f .deps/c-interface-gtk2.Tpo .deps/c-interface-gtk2.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-maps.o -MD -MP -MF .deps/c-interface-maps.Tpo -c -o c-interface-maps.o c-interface-maps.cc mv -f .deps/c-interface-curlew.Tpo .deps/c-interface-curlew.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-mmdb.o -MD -MP -MF .deps/c-interface-mmdb.Tpo -c -o c-interface-mmdb.o c-interface-mmdb.cc mv -f .deps/c-interface-kk.Tpo .deps/c-interface-kk.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-mogul.o -MD -MP -MF .deps/c-interface-mogul.Tpo -c -o c-interface-mogul.o c-interface-mogul.cc mv -f .deps/c-interface-gui.Tpo .deps/c-interface-gui.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-mogul-scripting.o -MD -MP -MF .deps/c-interface-mogul-scripting.Tpo -c -o c-interface-mogul-scripting.o c-interface-mogul-scripting.cc mv -f .deps/c-interface-image.Tpo .deps/c-interface-image.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-mutate.o -MD -MP -MF .deps/c-interface-mutate.Tpo -c -o c-interface-mutate.o c-interface-mutate.cc mv -f .deps/c-interface-mogul-scripting.Tpo .deps/c-interface-mogul-scripting.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-ncs.o -MD -MP -MF .deps/c-interface-ncs.Tpo -c -o c-interface-ncs.o c-interface-ncs.cc mv -f .deps/c-interface-info.Tpo .deps/c-interface-info.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-network.o -MD -MP -MF .deps/c-interface-network.Tpo -c -o c-interface-network.o c-interface-network.cc mv -f .deps/c-interface-mmdb.Tpo .deps/c-interface-mmdb.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-nucleotides.o -MD -MP -MF .deps/c-interface-nucleotides.Tpo -c -o c-interface-nucleotides.o c-interface-nucleotides.cc mv -f .deps/c-interface-mogul.Tpo .deps/c-interface-mogul.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-python.o -MD -MP -MF .deps/c-interface-python.Tpo -c -o c-interface-python.o c-interface-python.cc mv -f .deps/c-interface-ligands-gui.Tpo .deps/c-interface-ligands-gui.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-pisa.o -MD -MP -MF .deps/c-interface-pisa.Tpo -c -o c-interface-pisa.o c-interface-pisa.cc mv -f .deps/c-interface-mutate.Tpo .deps/c-interface-mutate.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-pisa-gui.o -MD -MP -MF .deps/c-interface-pisa-gui.Tpo -c -o c-interface-pisa-gui.o c-interface-pisa-gui.cc mv -f .deps/c-interface-maps.Tpo .deps/c-interface-maps.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-preferences.o -MD -MP -MF .deps/c-interface-preferences.Tpo -c -o c-interface-preferences.o c-interface-preferences.cc mv -f .deps/c-interface-ncs.Tpo .deps/c-interface-ncs.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-refine.o -MD -MP -MF .deps/c-interface-refine.Tpo -c -o c-interface-refine.o c-interface-refine.cc mv -f .deps/c-interface-ligands.Tpo .deps/c-interface-ligands.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-residues.o -MD -MP -MF .deps/c-interface-residues.Tpo -c -o c-interface-residues.o c-interface-residues.cc mv -f .deps/c-interface-network.Tpo .deps/c-interface-network.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-refmac.o -MD -MP -MF .deps/c-interface-refmac.Tpo -c -o c-interface-refmac.o c-interface-refmac.cc mv -f .deps/c-interface-nucleotides.Tpo .deps/c-interface-nucleotides.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT simple-refmac.o -MD -MP -MF .deps/simple-refmac.Tpo -c -o simple-refmac.o simple-refmac.cc mv -f .deps/c-interface-python.Tpo .deps/c-interface-python.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-scm.o -MD -MP -MF .deps/c-interface-scm.Tpo -c -o c-interface-scm.o c-interface-scm.cc mv -f .deps/c-interface-pisa.Tpo .deps/c-interface-pisa.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-sequence.o -MD -MP -MF .deps/c-interface-sequence.Tpo -c -o c-interface-sequence.o c-interface-sequence.cc mv -f .deps/c-interface-pisa-gui.Tpo .deps/c-interface-pisa-gui.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-sfs.o -MD -MP -MF .deps/c-interface-sfs.Tpo -c -o c-interface-sfs.o c-interface-sfs.cc mv -f .deps/c-interface-preferences.Tpo .deps/c-interface-preferences.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-sharpen.o -MD -MP -MF .deps/c-interface-sharpen.Tpo -c -o c-interface-sharpen.o c-interface-sharpen.cc mv -f .deps/c-interface-residues.Tpo .deps/c-interface-residues.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-superpose.o -MD -MP -MF .deps/c-interface-superpose.Tpo -c -o c-interface-superpose.o c-interface-superpose.cc mv -f .deps/c-interface-refine.Tpo .deps/c-interface-refine.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-validate.o -MD -MP -MF .deps/c-interface-validate.Tpo -c -o c-interface-validate.o c-interface-validate.cc mv -f .deps/c-interface-sfs.Tpo .deps/c-interface-sfs.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-view.o -MD -MP -MF .deps/c-interface-view.Tpo -c -o c-interface-view.o c-interface-view.cc mv -f .deps/simple-refmac.Tpo .deps/simple-refmac.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-widgets.o -MD -MP -MF .deps/c-interface-widgets.Tpo -c -o c-interface-widgets.o c-interface-widgets.cc mv -f .deps/c-interface-refmac.Tpo .deps/c-interface-refmac.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-waters.o -MD -MP -MF .deps/c-interface-waters.Tpo -c -o c-interface-waters.o c-interface-waters.cc mv -f .deps/c-interface-scm.Tpo .deps/c-interface-scm.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-waters-gui.o -MD -MP -MF .deps/c-interface-waters-gui.Tpo -c -o c-interface-waters-gui.o c-interface-waters-gui.cc mv -f .deps/c-interface-sequence.Tpo .deps/c-interface-sequence.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface.o -MD -MP -MF .deps/c-interface.Tpo -c -o c-interface.o c-interface.cc mv -f .deps/c-interface-sharpen.Tpo .deps/c-interface-sharpen.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT c-interface-test.o -MD -MP -MF .deps/c-interface-test.Tpo -c -o c-interface-test.o c-interface-test.cc mv -f .deps/c-interface-view.Tpo .deps/c-interface-view.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cc-interface-alignment.o -MD -MP -MF .deps/cc-interface-alignment.Tpo -c -o cc-interface-alignment.o cc-interface-alignment.cc mv -f .deps/c-interface-superpose.Tpo .deps/c-interface-superpose.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cc-interface-merge.o -MD -MP -MF .deps/cc-interface-merge.Tpo -c -o cc-interface-merge.o cc-interface-merge.cc In file included from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7/Python.h:83:0, from c-interface.cc:31: c-interface.cc: In function ‘PyObject* residue_spec_to_py(const coot::residue_spec_t&)’: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7/object.h:769:22: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] ((PyObject*)(op))->ob_refcnt++) ^ /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7/object.h:824:54: note: in expansion of macro ‘Py_INCREF’ #define Py_XINCREF(op) do { if ((op) == NULL) ; else Py_INCREF(op); } while (0) ^ c-interface.cc:6428:4: note: in expansion of macro ‘Py_XINCREF’ Py_XINCREF(Py_True); // warning: dereferencing type-punned pointer will break strict-aliasing rules ^ mv -f .deps/c-interface-widgets.Tpo .deps/c-interface-widgets.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cc-interface-molecular-representation.o -MD -MP -MF .deps/cc-interface-molecular-representation.Tpo -c -o cc-interface-molecular-representation.o cc-interface-molecular-representation.cc mv -f .deps/cc-interface-molecular-representation.Tpo .deps/cc-interface-molecular-representation.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cc-interface-molecular-symmetry.o -MD -MP -MF .deps/cc-interface-molecular-symmetry.Tpo -c -o cc-interface-molecular-symmetry.o cc-interface-molecular-symmetry.cc mv -f .deps/c-interface-waters.Tpo .deps/c-interface-waters.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cc-interface-map-utils.o -MD -MP -MF .deps/cc-interface-map-utils.Tpo -c -o cc-interface-map-utils.o cc-interface-map-utils.cc mv -f .deps/c-interface-waters-gui.Tpo .deps/c-interface-waters-gui.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cc-interface-png.o -MD -MP -MF .deps/cc-interface-png.Tpo -c -o cc-interface-png.o cc-interface-png.cc mv -f .deps/c-interface-validate.Tpo .deps/c-interface-validate.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cc-interface-user-defined-atom-colours.o -MD -MP -MF .deps/cc-interface-user-defined-atom-colours.Tpo -c -o cc-interface-user-defined-atom-colours.o cc-interface-user-defined-atom-colours.cc mv -f .deps/c-interface-test.Tpo .deps/c-interface-test.Po gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -g -O2 -Wall -Wunused -MT callbacks.o -MD -MP -MF .deps/callbacks.Tpo -c -o callbacks.o callbacks.c mv -f .deps/cc-interface-alignment.Tpo .deps/cc-interface-alignment.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cfc.o -MD -MP -MF .deps/cfc.Tpo -c -o cfc.o cfc.cc mv -f .deps/cc-interface-merge.Tpo .deps/cc-interface-merge.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT change-dir.o -MD -MP -MF .deps/change-dir.Tpo -c -o change-dir.o change-dir.cc mv -f .deps/change-dir.Tpo .deps/change-dir.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT cmtz-interface.o -MD -MP -MF .deps/cmtz-interface.Tpo -c -o cmtz-interface.o cmtz-interface.cc mv -f .deps/cc-interface-molecular-symmetry.Tpo .deps/cc-interface-molecular-symmetry.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT command-line.o -MD -MP -MF .deps/command-line.Tpo -c -o command-line.o command-line.cc mv -f .deps/callbacks.Tpo .deps/callbacks.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT command-line-extern.o -MD -MP -MF .deps/command-line-extern.Tpo -c -o command-line-extern.o command-line-extern.cc mv -f .deps/cc-interface-png.Tpo .deps/cc-interface-png.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-colour.o -MD -MP -MF .deps/coot-colour.Tpo -c -o coot-colour.o coot-colour.cc mv -f .deps/c-interface.Tpo .deps/c-interface.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-align.o -MD -MP -MF .deps/coot-align.Tpo -c -o coot-align.o coot-align.cc mv -f .deps/coot-colour.Tpo .deps/coot-colour.Po gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -g -O2 -Wall -Wunused -MT coot-glue-gtk2.o -MD -MP -MF .deps/coot-glue-gtk2.Tpo -c -o coot-glue-gtk2.o coot-glue-gtk2.c mv -f .deps/coot-glue-gtk2.Tpo .deps/coot-glue-gtk2.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-glue-gtk2-python.o -MD -MP -MF .deps/coot-glue-gtk2-python.Tpo -c -o coot-glue-gtk2-python.o coot-glue-gtk2-python.cc mv -f .deps/coot-glue-gtk2-python.Tpo .deps/coot-glue-gtk2-python.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-hydrogens.o -MD -MP -MF .deps/coot-hydrogens.Tpo -c -o coot-hydrogens.o coot-hydrogens.cc mv -f .deps/cc-interface-user-defined-atom-colours.Tpo .deps/cc-interface-user-defined-atom-colours.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot_pythonmodule.o -MD -MP -MF .deps/coot_pythonmodule.Tpo -c -o coot_pythonmodule.o coot_pythonmodule.cc mv -f .deps/coot_pythonmodule.Tpo .deps/coot_pythonmodule.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot-setup-python.o -MD -MP -MF .deps/coot-setup-python.Tpo -c -o coot-setup-python.o coot-setup-python.cc mv -f .deps/cc-interface-map-utils.Tpo .deps/cc-interface-map-utils.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot_wrap_guile.o -MD -MP -MF .deps/coot_wrap_guile.Tpo -c -o coot_wrap_guile.o coot_wrap_guile.cc mv -f .deps/coot-align.Tpo .deps/coot-align.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT draw.o -MD -MP -MF .deps/draw.Tpo -c -o draw.o draw.cc mv -f .deps/command-line.Tpo .deps/command-line.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT drag-and-drop.o -MD -MP -MF .deps/drag-and-drop.Tpo -c -o drag-and-drop.o drag-and-drop.cc mv -f .deps/command-line-extern.Tpo .deps/command-line-extern.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT draw-generic-display-objects.o -MD -MP -MF .deps/draw-generic-display-objects.Tpo -c -o draw-generic-display-objects.o draw-generic-display-objects.cc mv -f .deps/coot-hydrogens.Tpo .deps/coot-hydrogens.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT flev.o -MD -MP -MF .deps/flev.Tpo -c -o flev.o flev.cc mv -f .deps/cmtz-interface.Tpo .deps/cmtz-interface.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT generic-display-object.o -MD -MP -MF .deps/generic-display-object.Tpo -c -o generic-display-object.o generic-display-object.cc mv -f .deps/drag-and-drop.Tpo .deps/drag-and-drop.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT generic-objects.o -MD -MP -MF .deps/generic-objects.Tpo -c -o generic-objects.o generic-objects.cc mv -f .deps/coot-setup-python.Tpo .deps/coot-setup-python.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT geometry-graphs.o -MD -MP -MF .deps/geometry-graphs.Tpo -c -o geometry-graphs.o geometry-graphs.cc mv -f .deps/draw.Tpo .deps/draw.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT get-residue.o -MD -MP -MF .deps/get-residue.Tpo -c -o get-residue.o get-residue.cc mv -f .deps/cfc.Tpo .deps/cfc.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT get-monomer.o -MD -MP -MF .deps/get-monomer.Tpo -c -o get-monomer.o get-monomer.cc coot_wrap_guile.cc: In function ‘scm_unused_struct* _wrap_IntVector_ref(SCM, SCM)’: coot_wrap_guile.cc:2762:40: warning: ‘result’ may be used uninitialized in this function [-Wmaybe-uninitialized] gswig_result = scm_from_long(result); ^ coot_wrap_guile.cc: In function ‘scm_unused_struct* _wrap_IntVector_popN___(SCM)’: coot_wrap_guile.cc:2726:40: warning: ‘result’ may be used uninitialized in this function [-Wmaybe-uninitialized] gswig_result = scm_from_long(result); ^ mv -f .deps/draw-generic-display-objects.Tpo .deps/draw-generic-display-objects.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT globjects.o -MD -MP -MF .deps/globjects.Tpo -c -o globjects.o globjects.cc mv -f .deps/generic-display-object.Tpo .deps/generic-display-object.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT globularize.o -MD -MP -MF .deps/globularize.Tpo -c -o globularize.o globularize.cc mv -f .deps/generic-objects.Tpo .deps/generic-objects.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info.o -MD -MP -MF .deps/graphics-info.Tpo -c -o graphics-info.o graphics-info.cc mv -f .deps/get-residue.Tpo .deps/get-residue.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-defines.o -MD -MP -MF .deps/graphics-info-defines.Tpo -c -o graphics-info-defines.o graphics-info-defines.cc mv -f .deps/geometry-graphs.Tpo .deps/geometry-graphs.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-graphs.o -MD -MP -MF .deps/graphics-info-graphs.Tpo -c -o graphics-info-graphs.o graphics-info-graphs.cc mv -f .deps/flev.Tpo .deps/flev.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-gui.o -MD -MP -MF .deps/graphics-info-gui.Tpo -c -o graphics-info-gui.o graphics-info-gui.cc mv -f .deps/coot_wrap_guile.Tpo .deps/coot_wrap_guile.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-init.o -MD -MP -MF .deps/graphics-info-init.Tpo -c -o graphics-info-init.o graphics-info-init.cc mv -f .deps/get-monomer.Tpo .deps/get-monomer.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-intermediate.o -MD -MP -MF .deps/graphics-info-intermediate.Tpo -c -o graphics-info-intermediate.o graphics-info-intermediate.cc mv -f .deps/globularize.Tpo .deps/globularize.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-modelling.o -MD -MP -MF .deps/graphics-info-modelling.Tpo -c -o graphics-info-modelling.o graphics-info-modelling.cc mv -f .deps/globjects.Tpo .deps/globjects.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-navigation.o -MD -MP -MF .deps/graphics-info-navigation.Tpo -c -o graphics-info-navigation.o graphics-info-navigation.cc mv -f .deps/graphics-info-defines.Tpo .deps/graphics-info-defines.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-navigation-gtk1.o -MD -MP -MF .deps/graphics-info-navigation-gtk1.Tpo -c -o graphics-info-navigation-gtk1.o graphics-info-navigation-gtk1.cc mv -f .deps/graphics-info-navigation-gtk1.Tpo .deps/graphics-info-navigation-gtk1.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-navigation-gtk2.o -MD -MP -MF .deps/graphics-info-navigation-gtk2.Tpo -c -o graphics-info-navigation-gtk2.o graphics-info-navigation-gtk2.cc mv -f .deps/graphics-info-graphs.Tpo .deps/graphics-info-graphs.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-preferences.o -MD -MP -MF .deps/graphics-info-preferences.Tpo -c -o graphics-info-preferences.o graphics-info-preferences.cc mv -f .deps/graphics-info-intermediate.Tpo .deps/graphics-info-intermediate.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-network.o -MD -MP -MF .deps/graphics-info-network.Tpo -c -o graphics-info-network.o graphics-info-network.cc mv -f .deps/graphics-info-init.Tpo .deps/graphics-info-init.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-mutate.o -MD -MP -MF .deps/graphics-info-mutate.Tpo -c -o graphics-info-mutate.o graphics-info-mutate.cc mv -f .deps/graphics-info-gui.Tpo .deps/graphics-info-gui.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-lsq.o -MD -MP -MF .deps/graphics-info-lsq.Tpo -c -o graphics-info-lsq.o graphics-info-lsq.cc mv -f .deps/graphics-info-navigation.Tpo .deps/graphics-info-navigation.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-pick.o -MD -MP -MF .deps/graphics-info-pick.Tpo -c -o graphics-info-pick.o graphics-info-pick.cc mv -f .deps/graphics-info-navigation-gtk2.Tpo .deps/graphics-info-navigation-gtk2.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-refmac.o -MD -MP -MF .deps/graphics-info-refmac.Tpo -c -o graphics-info-refmac.o graphics-info-refmac.cc mv -f .deps/graphics-info.Tpo .deps/graphics-info.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-render.o -MD -MP -MF .deps/graphics-info-render.Tpo -c -o graphics-info-render.o graphics-info-render.cc mv -f .deps/graphics-info-network.Tpo .deps/graphics-info-network.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-residues.o -MD -MP -MF .deps/graphics-info-residues.Tpo -c -o graphics-info-residues.o graphics-info-residues.cc mv -f .deps/graphics-info-modelling.Tpo .deps/graphics-info-modelling.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-refine.o -MD -MP -MF .deps/graphics-info-refine.Tpo -c -o graphics-info-refine.o graphics-info-refine.cc mv -f .deps/graphics-info-preferences.Tpo .deps/graphics-info-preferences.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-scripting.o -MD -MP -MF .deps/graphics-info-scripting.Tpo -c -o graphics-info-scripting.o graphics-info-scripting.cc mv -f .deps/graphics-info-lsq.Tpo .deps/graphics-info-lsq.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-state.o -MD -MP -MF .deps/graphics-info-state.Tpo -c -o graphics-info-state.o graphics-info-state.cc mv -f .deps/graphics-info-mutate.Tpo .deps/graphics-info-mutate.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-statics.o -MD -MP -MF .deps/graphics-info-statics.Tpo -c -o graphics-info-statics.o graphics-info-statics.cc mv -f .deps/graphics-info-pick.Tpo .deps/graphics-info-pick.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-info-superpose.o -MD -MP -MF .deps/graphics-info-superpose.Tpo -c -o graphics-info-superpose.o graphics-info-superpose.cc mv -f .deps/graphics-info-refmac.Tpo .deps/graphics-info-refmac.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT graphics-ligand-view.o -MD -MP -MF .deps/graphics-ligand-view.Tpo -c -o graphics-ligand-view.o graphics-ligand-view.cc mv -f .deps/graphics-info-render.Tpo .deps/graphics-info-render.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT gl-matrix.o -MD -MP -MF .deps/gl-matrix.Tpo -c -o gl-matrix.o gl-matrix.cc mv -f .deps/gl-matrix.Tpo .deps/gl-matrix.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT gtk-manual.o -MD -MP -MF .deps/gtk-manual.Tpo -c -o gtk-manual.o gtk-manual.cc mv -f .deps/graphics-info-refine.Tpo .deps/graphics-info-refine.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT gtk-widget-conversion-utils.o -MD -MP -MF .deps/gtk-widget-conversion-utils.Tpo -c -o gtk-widget-conversion-utils.o gtk-widget-conversion-utils.cc mv -f .deps/graphics-info-residues.Tpo .deps/graphics-info-residues.Po gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -g -O2 -Wall -Wunused -MT gtk2-interface.o -MD -MP -MF .deps/gtk2-interface.Tpo -c -o gtk2-interface.o gtk2-interface.c mv -f .deps/gtk-widget-conversion-utils.Tpo .deps/gtk-widget-conversion-utils.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-callbacks-outer.o -MD -MP -MF .deps/lbg-callbacks-outer.Tpo -c -o lbg-callbacks-outer.o lbg-callbacks-outer.cc gtk2-interface.c: In function ‘create_coot_references_dialog’: gtk2-interface.c:27655:15: warning: variable ‘tmp_toolbar_icon_size’ set but not used [-Wunused-but-set-variable] GtkIconSize tmp_toolbar_icon_size; ^ gtk2-interface.c: In function ‘create_multi_residue_torsion_dialog’: gtk2-interface.c:28848:7: warning: ‘gdk_pixbuf_unref’ is deprecated (declared at /usr/include/gdk-pixbuf-2.0/gdk-pixbuf/gdk-pixbuf-core.h:232): Use 'g_object_unref' instead [-Wdeprecated-declarations] gdk_pixbuf_unref (multi_residue_torsion_dialog_icon_pixbuf); ^ mv -f .deps/graphics-info-scripting.Tpo .deps/graphics-info-scripting.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT lbg-interface.o -MD -MP -MF .deps/lbg-interface.Tpo -c -o lbg-interface.o lbg-interface.cc mv -f .deps/graphics-info-statics.Tpo .deps/graphics-info-statics.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info.o -MD -MP -MF .deps/molecule-class-info.Tpo -c -o molecule-class-info.o molecule-class-info.cc mv -f .deps/gtk-manual.Tpo .deps/gtk-manual.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-alignment.o -MD -MP -MF .deps/molecule-class-info-alignment.Tpo -c -o molecule-class-info-alignment.o molecule-class-info-alignment.cc mv -f .deps/graphics-info-state.Tpo .deps/graphics-info-state.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-analysis.o -MD -MP -MF .deps/molecule-class-info-analysis.Tpo -c -o molecule-class-info-analysis.o molecule-class-info-analysis.cc mv -f .deps/graphics-ligand-view.Tpo .deps/graphics-ligand-view.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-bonds.o -MD -MP -MF .deps/molecule-class-info-bonds.Tpo -c -o molecule-class-info-bonds.o molecule-class-info-bonds.cc mv -f .deps/graphics-info-superpose.Tpo .deps/graphics-info-superpose.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-build.o -MD -MP -MF .deps/molecule-class-info-build.Tpo -c -o molecule-class-info-build.o molecule-class-info-build.cc mv -f .deps/lbg-callbacks-outer.Tpo .deps/lbg-callbacks-outer.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-maps.o -MD -MP -MF .deps/molecule-class-info-maps.Tpo -c -o molecule-class-info-maps.o molecule-class-info-maps.cc mv -f .deps/gtk2-interface.Tpo .deps/gtk2-interface.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-maps-2.o -MD -MP -MF .deps/molecule-class-info-maps-2.Tpo -c -o molecule-class-info-maps-2.o molecule-class-info-maps-2.cc mv -f .deps/molecule-class-info-alignment.Tpo .deps/molecule-class-info-alignment.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-molecular-symmetry.o -MD -MP -MF .deps/molecule-class-info-molecular-symmetry.Tpo -c -o molecule-class-info-molecular-symmetry.o molecule-class-info-molecular-symmetry.cc mv -f .deps/molecule-class-info-analysis.Tpo .deps/molecule-class-info-analysis.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-kdc.o -MD -MP -MF .deps/molecule-class-info-kdc.Tpo -c -o molecule-class-info-kdc.o molecule-class-info-kdc.cc mv -f .deps/molecule-class-info-bonds.Tpo .deps/molecule-class-info-bonds.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-dots.o -MD -MP -MF .deps/molecule-class-info-dots.Tpo -c -o molecule-class-info-dots.o molecule-class-info-dots.cc mv -f .deps/lbg-interface.Tpo .deps/lbg-interface.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-dots-internal.o -MD -MP -MF .deps/molecule-class-info-dots-internal.Tpo -c -o molecule-class-info-dots-internal.o molecule-class-info-dots-internal.cc mv -f .deps/molecule-class-info-dots-internal.Tpo .deps/molecule-class-info-dots-internal.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-other.o -MD -MP -MF .deps/molecule-class-info-other.Tpo -c -o molecule-class-info-other.o molecule-class-info-other.cc mv -f .deps/molecule-class-info-dots.Tpo .deps/molecule-class-info-dots.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-mutate.o -MD -MP -MF .deps/molecule-class-info-mutate.Tpo -c -o molecule-class-info-mutate.o molecule-class-info-mutate.cc mv -f .deps/molecule-class-info-maps-2.Tpo .deps/molecule-class-info-maps-2.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-residues.o -MD -MP -MF .deps/molecule-class-info-residues.Tpo -c -o molecule-class-info-residues.o molecule-class-info-residues.cc mv -f .deps/molecule-class-info-molecular-symmetry.Tpo .deps/molecule-class-info-molecular-symmetry.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-refine.o -MD -MP -MF .deps/molecule-class-info-refine.Tpo -c -o molecule-class-info-refine.o molecule-class-info-refine.cc mv -f .deps/molecule-class-info-build.Tpo .deps/molecule-class-info-build.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-kk.o -MD -MP -MF .deps/molecule-class-info-kk.Tpo -c -o molecule-class-info-kk.o molecule-class-info-kk.cc mv -f .deps/molecule-class-info-kdc.Tpo .deps/molecule-class-info-kdc.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-surface.o -MD -MP -MF .deps/molecule-class-info-surface.Tpo -c -o molecule-class-info-surface.o molecule-class-info-surface.cc mv -f .deps/molecule-class-info.Tpo .deps/molecule-class-info.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-string.o -MD -MP -MF .deps/molecule-class-info-string.Tpo -c -o molecule-class-info-string.o molecule-class-info-string.cc mv -f .deps/molecule-class-info-kk.Tpo .deps/molecule-class-info-kk.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-patterson.o -MD -MP -MF .deps/molecule-class-info-patterson.Tpo -c -o molecule-class-info-patterson.o molecule-class-info-patterson.cc mv -f .deps/molecule-class-info-mutate.Tpo .deps/molecule-class-info-mutate.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-ncs.o -MD -MP -MF .deps/molecule-class-info-ncs.Tpo -c -o molecule-class-info-ncs.o molecule-class-info-ncs.cc mv -f .deps/molecule-class-info-maps.Tpo .deps/molecule-class-info-maps.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-mol-tris.o -MD -MP -MF .deps/molecule-class-info-mol-tris.Tpo -c -o molecule-class-info-mol-tris.o molecule-class-info-mol-tris.cc mv -f .deps/molecule-class-info-surface.Tpo .deps/molecule-class-info-surface.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT molecule-class-info-widget-work.o -MD -MP -MF .deps/molecule-class-info-widget-work.Tpo -c -o molecule-class-info-widget-work.o molecule-class-info-widget-work.cc mv -f .deps/molecule-class-info-string.Tpo .deps/molecule-class-info-string.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT nsv.o -MD -MP -MF .deps/nsv.Tpo -c -o nsv.o nsv.cc mv -f .deps/molecule-class-info-refine.Tpo .deps/molecule-class-info-refine.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT pick.o -MD -MP -MF .deps/pick.Tpo -c -o pick.o pick.cc mv -f .deps/molecule-class-info-residues.Tpo .deps/molecule-class-info-residues.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT probe-clash-score.o -MD -MP -MF .deps/probe-clash-score.Tpo -c -o probe-clash-score.o probe-clash-score.cc mv -f .deps/molecule-class-info-patterson.Tpo .deps/molecule-class-info-patterson.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT protein_db-interface.o -MD -MP -MF .deps/protein_db-interface.Tpo -c -o protein_db-interface.o protein_db-interface.cc mv -f .deps/nsv.Tpo .deps/nsv.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT python-classes.o -MD -MP -MF .deps/python-classes.Tpo -c -o python-classes.o python-classes.cc In file included from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7/Python.h:8:0, from python-classes.cc:6: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7/pyconfig.h:1223:0: warning: "_POSIX_C_SOURCE" redefined [enabled by default] #define _POSIX_C_SOURCE 200112L ^ In file included from /usr/include/c++/4.8.2/x86_64-redhat-linux/bits/os_defines.h:39:0, from /usr/include/c++/4.8.2/x86_64-redhat-linux/bits/c++config.h:2097, from /usr/include/c++/4.8.2/iostream:38, from python-classes.cc:4: /usr/include/features.h:168:0: note: this is the location of the previous definition # define _POSIX_C_SOURCE 200809L ^ In file included from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7/Python.h:8:0, from python-classes.cc:6: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7/pyconfig.h:1245:0: warning: "_XOPEN_SOURCE" redefined [enabled by default] #define _XOPEN_SOURCE 600 ^ In file included from /usr/include/c++/4.8.2/x86_64-redhat-linux/bits/os_defines.h:39:0, from /usr/include/c++/4.8.2/x86_64-redhat-linux/bits/c++config.h:2097, from /usr/include/c++/4.8.2/iostream:38, from python-classes.cc:4: /usr/include/features.h:170:0: note: this is the location of the previous definition # define _XOPEN_SOURCE 700 ^ In file included from /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7/Python.h:83:0, from python-classes.cc:6: python-classes.cc: In function ‘void init_pathology_data()’: /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7/object.h:769:22: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] ((PyObject*)(op))->ob_refcnt++) ^ python-classes.cc:223:5: note: in expansion of macro ‘Py_INCREF’ Py_INCREF(&pathology_data_PathologyDataType); ^ mv -f .deps/python-classes.Tpo .deps/python-classes.Po gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -g -O2 -Wall -Wunused -MT read-phs.o -MD -MP -MF .deps/read-phs.Tpo -c -o read-phs.o read-phs.c mv -f .deps/read-phs.Tpo .deps/read-phs.Po gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -g -O2 -Wall -Wunused -MT read-cif.o -MD -MP -MF .deps/read-cif.Tpo -c -o read-cif.o read-cif.c mv -f .deps/read-cif.Tpo .deps/read-cif.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rama_mousey.o -MD -MP -MF .deps/rama_mousey.Tpo -c -o rama_mousey.o rama_mousey.cc mv -f .deps/protein_db-interface.Tpo .deps/protein_db-interface.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT rama_plot.o -MD -MP -MF .deps/rama_plot.Tpo -c -o rama_plot.o rama_plot.cc mv -f .deps/probe-clash-score.Tpo .deps/probe-clash-score.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT restraints-editor.o -MD -MP -MF .deps/restraints-editor.Tpo -c -o restraints-editor.o restraints-editor.cc mv -f .deps/rama_mousey.Tpo .deps/rama_mousey.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT sound.o -MD -MP -MF .deps/sound.Tpo -c -o sound.o sound.cc mv -f .deps/sound.Tpo .deps/sound.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT sdf-interface.o -MD -MP -MF .deps/sdf-interface.Tpo -c -o sdf-interface.o sdf-interface.cc mv -f .deps/molecule-class-info-widget-work.Tpo .deps/molecule-class-info-widget-work.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT sequence-view.o -MD -MP -MF .deps/sequence-view.Tpo -c -o sequence-view.o sequence-view.cc mv -f .deps/molecule-class-info-mol-tris.Tpo .deps/molecule-class-info-mol-tris.Po gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -g -O2 -Wall -Wunused -MT seq-view-interface.o -MD -MP -MF .deps/seq-view-interface.Tpo -c -o seq-view-interface.o seq-view-interface.c mv -f .deps/seq-view-interface.Tpo .deps/seq-view-interface.Po gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -g -O2 -Wall -Wunused -MT support.o -MD -MP -MF .deps/support.Tpo -c -o support.o support.c mv -f .deps/support.Tpo .deps/support.Po gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -g -O2 -Wall -Wunused -MT support-gtk2-extras.o -MD -MP -MF .deps/support-gtk2-extras.Tpo -c -o support-gtk2-extras.o support-gtk2-extras.c mv -f .deps/support-gtk2-extras.Tpo .deps/support-gtk2-extras.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT testing.o -MD -MP -MF .deps/testing.Tpo -c -o testing.o testing.cc mv -f .deps/pick.Tpo .deps/pick.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT testing-2.o -MD -MP -MF .deps/testing-2.Tpo -c -o testing-2.o testing-2.cc mv -f .deps/molecule-class-info-other.Tpo .deps/molecule-class-info-other.Po gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -g -O2 -Wall -Wunused -MT trackball.o -MD -MP -MF .deps/trackball.Tpo -c -o trackball.o trackball.c mv -f .deps/rama_plot.Tpo .deps/rama_plot.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT user-mods.o -MD -MP -MF .deps/user-mods.Tpo -c -o user-mods.o user-mods.cc mv -f .deps/trackball.Tpo .deps/trackball.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT xmap-utils.o -MD -MP -MF .deps/xmap-utils.Tpo -c -o xmap-utils.o xmap-utils.cc mv -f .deps/xmap-utils.Tpo .deps/xmap-utils.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT spherical-density.o -MD -MP -MF .deps/spherical-density.Tpo -c -o spherical-density.o spherical-density.cc mv -f .deps/molecule-class-info-ncs.Tpo .deps/molecule-class-info-ncs.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT validation.o -MD -MP -MF .deps/validation.Tpo -c -o validation.o validation.cc mv -f .deps/user-mods.Tpo .deps/user-mods.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT view.o -MD -MP -MF .deps/view.Tpo -c -o view.o view.cc mv -f .deps/testing-2.Tpo .deps/testing-2.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT coot_wrap_python.o -MD -MP -MF .deps/coot_wrap_python.Tpo -c -o coot_wrap_python.o coot_wrap_python.cc mv -f .deps/sequence-view.Tpo .deps/sequence-view.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT density-score-by-residue-src.o -MD -MP -MF .deps/density-score-by-residue-src.Tpo -c -o density-score-by-residue-src.o density-score-by-residue-src.cc mv -f .deps/restraints-editor.Tpo .deps/restraints-editor.Po g++ -std=gnu++11 -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.9.6.1-pre\" -DPACKAGE_STRING=\"coot\ 0.9.6.1-pre\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.9.6.1-pre\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_CXX11=1 -DHAVE_CXX_THREAD=1 -DHAVE_BOOST=/\*\*/ -DHAVE_PYTHON=\"2.7\" -DHAVE_BOOST_PYTHON=/\*\*/ -I. -I.. -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/rdkit -DRDKIT_HAS_CAIRO_SUPPORT -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMAKE_ENHANCED_LIGAND_TOOLS -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libgnomecanvas-2.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/libart-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/gtk-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/atk-1.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pixman-1 -I/usr/include/libdrm -DCOOT_USE_GTK2_INTERFACE -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/gtkglext-1.0 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/usr/include/atk-1.0 -DHAVE_GOOCANVAS -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib64/gtk-2.0/include -I/usr/include/atk-1.0 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/pango-1.0 -I/usr/include/fribidi -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/pixman-1 -I/usr/include/libdrm -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DHAVE_SSMLIB -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -MT dynarama-main.o -MD -MP -MF .deps/dynarama-main.Tpo -c -o dynarama-main.o dynarama-main.cc mv -f .deps/spherical-density.Tpo .deps/spherical-density.Po /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -module --no-undefined -o coot_embedded.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages coot-embedded.lo ../lidia-core/libcoot-lidia-core.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/coot-embedded.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ../lidia-core/.libs/libcoot-lidia-core.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -pthread -fopenmp -O3 -Wl,-export-dynamic -Wl,-export-dynamic -pthread -fopenmp -Wl,-soname -Wl,coot_embedded.so.0 -o .libs/coot_embedded.so.0.0.0 mv -f .deps/dynarama-main.Tpo .deps/dynarama-main.Po /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -module --no-undefined -o coot_extended.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages coot-extended.lo ../pli/libcoot-pli.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 libtool: link: (cd ".libs" && rm -f "coot_embedded.so.0" && ln -s "coot_embedded.so.0.0.0" "coot_embedded.so.0") mv -f .deps/density-score-by-residue-src.Tpo .deps/density-score-by-residue-src.Po libtool: link: (cd ".libs" && rm -f "coot_embedded.so" && ln -s "coot_embedded.so.0.0.0" "coot_embedded.so") libtool: link: ar cru .libs/coot_embedded.a coot-embedded.o /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o coot-fix-nomenclature-errors fix-nomenclature.o coot-nomenclature.o ../ligand/libcoot-ligand.la ../cootaneer/libcootaneer.la ../db-main/libcoot-db-main.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-map-utils.la ../ccp4mg-utils/libccp4mg-utils.la ../lidia-core/libcoot-lidia-core.la ../analysis/libcoot-analysis.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib libtool: link: ranlib .libs/coot_embedded.a libtool: link: ( cd ".libs" && rm -f "coot_embedded.la" && ln -s "../coot_embedded.la" "coot_embedded.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o coot-density-score-by-residue-bin density-score-by-residue-src.o ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../coot-utils/libcoot-coord-extras.la ../coords/libcoot-coords.la ../mini-mol/libcoot-mini-mol.la ../ligand/libcoot-ligand.la ../analysis/libcoot-analysis.la ../db-main/libcoot-db-main.la ../ideal/libcoot-ideal.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la ../cootaneer/libcootaneer.la ../compat/libcoot-compat.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm mv -f .deps/sdf-interface.Tpo .deps/sdf-interface.Po /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o dynarama-bin dynarama-main.o rama_plot.o rama_mousey.o ../coords/libcoot-coords.la ../ligand/libcoot-ligand.la ../coot-utils/libcoot-map-heavy.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../ideal/libcoot-ideal.la ../ccp4mg-utils/libccp4mg-utils.la ../lidia-core/libcoot-lidia-core.la ../mini-mol/libcoot-mini-mol.la ../geometry/libcoot-geometry.la ../db-main/libcoot-db-main.la ../analysis/libcoot-analysis.la ../cootaneer/libcootaneer.la ../compat/libcoot-compat.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgoocanvas -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lcairo -lpango-1.0 -lfontconfig -lgobject-2.0 -lglib-2.0 -lfreetype libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/coot-extended.o -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pli/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -Wl,-rpath -Wl,/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs ../pli/.libs/libcoot-pli.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so ../lidia-core/.libs/libcoot-lidia-core.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz ../geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so ../utils/.libs/libcoot-utils.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -pthread -fopenmp -O3 -Wl,-export-dynamic -Wl,-export-dynamic -pthread -fopenmp -Wl,-soname -Wl,coot_extended.so.0 -o .libs/coot_extended.so.0.0.0 libtool: link: (cd ".libs" && rm -f "coot_extended.so.0" && ln -s "coot_extended.so.0.0.0" "coot_extended.so.0") libtool: link: (cd ".libs" && rm -f "coot_extended.so" && ln -s "coot_extended.so.0.0.0" "coot_extended.so") libtool: link: ar cru .libs/coot_extended.a coot-extended.o libtool: link: ranlib .libs/coot_extended.a libtool: link: ( cd ".libs" && rm -f "coot_extended.la" && ln -s "../coot_extended.la" "coot_extended.la" ) mv -f .deps/validation.Tpo .deps/validation.Po mv -f .deps/view.Tpo .deps/view.Po libtool: link: g++ -std=gnu++11 -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DPACKAGE_LOCALE_DIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale\" -DPKGPYTHONDIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-scientific-linux-7.9-python-gtk2\" "-DCOOT_BUILD_INFO_STRING=\"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o .libs/coot-fix-nomenclature-errors fix-nomenclature.o coot-nomenclature.o -Wl,-export-dynamic -Wl,-export-dynamic ../ligand/.libs/libcoot-ligand.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: ../cootaneer/.libs/libcootaneer.so ../db-main/.libs/libcoot-db-main.so ../ideal/.libs/libcoot-ideal.so ../coot-utils/.libs/libcoot-map-heavy.so ../geometry/.libs/libcoot-geometry.so ../coords/.libs/libcoot-coords.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs/libcoot-ligand.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs/libcootaneer.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs/libcoot-db-main.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs/libccp4mg-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-extras.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs/libcoot-analysis.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng15 ../lidia-core/.libs/libcoot-lidia-core.so ../analysis/.libs/libcoot-analysis.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lm -lutil -fopenmp -pthread -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib libtool: link: g++ -std=gnu++11 -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DPACKAGE_LOCALE_DIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale\" -DPKGPYTHONDIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-scientific-linux-7.9-python-gtk2\" "-DCOOT_BUILD_INFO_STRING=\"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o .libs/coot-density-score-by-residue-bin density-score-by-residue-src.o -Wl,-export-dynamic ../coot-utils/.libs/libcoot-map-heavy.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: ../geometry/.libs/libcoot-geometry.so ../coot-utils/.libs/libcoot-coord-extras.so ../coords/.libs/libcoot-coords.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs/libcoot-ligand.so ../mini-mol/.libs/libcoot-mini-mol.so ../ligand/.libs/libcoot-ligand.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs/libcootaneer.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs/libcoot-db-main.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs/libccp4mg-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs/libcoot-analysis.so ../analysis/.libs/libcoot-analysis.so ../db-main/.libs/libcoot-db-main.so ../ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-extras.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng15 ../coot-utils/.libs/libcoot-map-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so ../coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so ../lidia-core/.libs/libcoot-lidia-core.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz ../utils/.libs/libcoot-utils.so ../cootaneer/.libs/libcootaneer.so ../compat/.libs/libcoot-compat.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lm -fopenmp -pthread -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib libtool: link: g++ -std=gnu++11 -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DPACKAGE_LOCALE_DIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale\" -DPKGPYTHONDIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-scientific-linux-7.9-python-gtk2\" "-DCOOT_BUILD_INFO_STRING=\"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o .libs/dynarama-bin dynarama-main.o rama_plot.o rama_mousey.o ../coords/.libs/libcoot-coords.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs/libcoot-ligand.so ../ligand/.libs/libcoot-ligand.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs/libcootaneer.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs/libcoot-db-main.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs/libccp4mg-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs/libcoot-analysis.so ../coot-utils/.libs/libcoot-map-heavy.so ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-extras.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng15 ../lidia-core/.libs/libcoot-lidia-core.so ../mini-mol/.libs/libcoot-mini-mol.so ../geometry/.libs/libcoot-geometry.so ../db-main/.libs/libcoot-db-main.so ../analysis/.libs/libcoot-analysis.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil ../cootaneer/.libs/libcootaneer.so ../compat/.libs/libcoot-compat.so ../utils/.libs/libcoot-utils.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so -lm -lpthread /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgoocanvas.so -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lcairo -lpango-1.0 -lfontconfig -lgobject-2.0 -lglib-2.0 -lfreetype -fopenmp -pthread -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib mv -f .deps/testing.Tpo .deps/testing.Po mv -f .deps/coot_wrap_python.Tpo .deps/coot_wrap_python.Po /bin/sh ../libtool --tag=CXX --mode=link g++ -std=gnu++11 -DPKGDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-scientific-linux-7.9-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o coot-bin main.o boot-python.o atom-overlaps.o git-revision-count.o scm-boot-guile.o c-interface-analysis.o c-interface-bonds.o c-interface-build.o c-interface-build-morph.o c-interface-build-main-chain.o c-interface-build-side-chain.o c-interface-build-symmetry.o c-interface-build-gui.o c-interface-curlew.o c-interface-database.o c-interface-gui.o c-interface-gtk2.o c-interface-info.o c-interface-kk.o c-interface-image.o c-interface-ligands-gui.o c-interface-ligands.o c-interface-maps.o c-interface-mmdb.o c-interface-mogul.o c-interface-mogul-scripting.o c-interface-mutate.o c-interface-ncs.o c-interface-network.o c-interface-nucleotides.o c-interface-python.o c-interface-pisa.o c-interface-pisa-gui.o c-interface-preferences.o c-interface-refine.o c-interface-residues.o c-interface-refmac.o simple-refmac.o c-interface-scm.o c-interface-sequence.o c-interface-sfs.o c-interface-sharpen.o c-interface-superpose.o c-interface-validate.o c-interface-view.o c-interface-widgets.o c-interface-waters.o c-interface-waters-gui.o c-interface.o c-interface-test.o cc-interface-alignment.o cc-interface-merge.o cc-interface-molecular-representation.o cc-interface-molecular-symmetry.o cc-interface-map-utils.o cc-interface-png.o cc-interface-user-defined-atom-colours.o callbacks.o cfc.o change-dir.o cmtz-interface.o command-line.o command-line-extern.o coot-colour.o coot-align.o coot-nomenclature.o coot-glue-gtk2.o coot-glue-gtk2-python.o coot-hydrogens.o coot_pythonmodule.o coot-setup-python.o coot_wrap_guile.o draw.o drag-and-drop.o draw-generic-display-objects.o flev.o generic-display-object.o generic-objects.o geometry-graphs.o get-residue.o get-monomer.o globjects.o globularize.o graphics-info.o graphics-info-defines.o graphics-info-graphs.o graphics-info-gui.o graphics-info-init.o graphics-info-intermediate.o graphics-info-modelling.o graphics-info-navigation.o graphics-info-navigation-gtk1.o graphics-info-navigation-gtk2.o graphics-info-preferences.o graphics-info-network.o graphics-info-mutate.o graphics-info-lsq.o graphics-info-pick.o graphics-info-refmac.o graphics-info-render.o graphics-info-residues.o graphics-info-refine.o graphics-info-scripting.o graphics-info-state.o graphics-info-statics.o graphics-info-superpose.o graphics-ligand-view.o gl-matrix.o gtk-manual.o gtk-widget-conversion-utils.o gtk2-interface.o lbg-callbacks-outer.o lbg-interface.o molecule-class-info.o molecule-class-info-alignment.o molecule-class-info-analysis.o molecule-class-info-bonds.o molecule-class-info-build.o molecule-class-info-maps.o molecule-class-info-maps-2.o molecule-class-info-molecular-symmetry.o molecule-class-info-kdc.o molecule-class-info-dots.o molecule-class-info-dots-internal.o molecule-class-info-other.o molecule-class-info-mutate.o molecule-class-info-residues.o molecule-class-info-refine.o molecule-class-info-kk.o molecule-class-info-surface.o molecule-class-info-string.o molecule-class-info-patterson.o molecule-class-info-ncs.o molecule-class-info-mol-tris.o molecule-class-info-widget-work.o nsv.o pick.o probe-clash-score.o protein_db-interface.o python-classes.o read-phs.o read-cif.o rama_mousey.o rama_plot.o restraints-editor.o sound.o sdf-interface.o sequence-view.o seq-view-interface.o support.o support-gtk2-extras.o testing.o testing-2.o trackball.o user-mods.o xmap-utils.o spherical-density.o validation.o view.o coot_wrap_python.o -fopenmp ../lbg/libcoot-lidia.la ../pli/libcoot-pli.la ../ligand/libcoot-ligand.la ../lidia-core/libcoot-lidia-core.la ../goograph/libcoot-goograph.la ../density-contour/libcoot-isosurface.la ../build/libcoot-cabuild.la ../skeleton/libcoot-skeleton.la ../angles/libcoot-AngleInfo.la ../db-main/libcoot-db-main.la ../high-res/libcoot-high-res.la ../ideal/libcoot-ideal.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-map-heavy.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la ../analysis/libcoot-analysis.la ../protein_db/libcoot-protein-db.la ../cootilus/libcootilus.la ../cootaneer/libcootaneer.la ../compat/libcoot-compat.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lssm -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lguilegtk-2.0 -P -pthread -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lguile -lltdl -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgmp -lcrypt -lm -lltdl -Wl,--export-dynamic -pthread -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgtkglext-x11-1.0 -lgdkglext-x11-1.0 -lGLU -lGL -lXmu -lXt -lSM -lICE -lgtk-x11-2.0 -lgmodule-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lcairo -lpango-1.0 -lfontconfig -lgobject-2.0 -lglib-2.0 -lfreetype -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lglut -L/usr/X11R6/lib64 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgnomecanvas-2 -lart_lgpl_2 -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lcairo -lpango-1.0 -lfontconfig -lgobject-2.0 -lglib-2.0 -lfreetype -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcurl -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgoocanvas -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lsqlite3 -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lcairo -lpango-1.0 -lfontconfig -lgobject-2.0 -lglib-2.0 -lfreetype libtool: link: g++ -std=gnu++11 -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DPACKAGE_LOCALE_DIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale\" -DPKGPYTHONDIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-scientific-linux-7.9-python-gtk2\" "-DCOOT_BUILD_INFO_STRING=\"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o .libs/coot-bin main.o boot-python.o atom-overlaps.o git-revision-count.o scm-boot-guile.o c-interface-analysis.o c-interface-bonds.o c-interface-build.o c-interface-build-morph.o c-interface-build-main-chain.o c-interface-build-side-chain.o c-interface-build-symmetry.o c-interface-build-gui.o c-interface-curlew.o c-interface-database.o c-interface-gui.o c-interface-gtk2.o c-interface-info.o c-interface-kk.o c-interface-image.o c-interface-ligands-gui.o c-interface-ligands.o c-interface-maps.o c-interface-mmdb.o c-interface-mogul.o c-interface-mogul-scripting.o c-interface-mutate.o c-interface-ncs.o c-interface-network.o c-interface-nucleotides.o c-interface-python.o c-interface-pisa.o c-interface-pisa-gui.o c-interface-preferences.o c-interface-refine.o c-interface-residues.o c-interface-refmac.o simple-refmac.o c-interface-scm.o c-interface-sequence.o c-interface-sfs.o c-interface-sharpen.o c-interface-superpose.o c-interface-validate.o c-interface-view.o c-interface-widgets.o c-interface-waters.o c-interface-waters-gui.o c-interface.o c-interface-test.o cc-interface-alignment.o cc-interface-merge.o cc-interface-molecular-representation.o cc-interface-molecular-symmetry.o cc-interface-map-utils.o cc-interface-png.o cc-interface-user-defined-atom-colours.o callbacks.o cfc.o change-dir.o cmtz-interface.o command-line.o command-line-extern.o coot-colour.o coot-align.o coot-nomenclature.o coot-glue-gtk2.o coot-glue-gtk2-python.o coot-hydrogens.o coot_pythonmodule.o coot-setup-python.o coot_wrap_guile.o draw.o drag-and-drop.o draw-generic-display-objects.o flev.o generic-display-object.o generic-objects.o geometry-graphs.o get-residue.o get-monomer.o globjects.o globularize.o graphics-info.o graphics-info-defines.o graphics-info-graphs.o graphics-info-gui.o graphics-info-init.o graphics-info-intermediate.o graphics-info-modelling.o graphics-info-navigation.o graphics-info-navigation-gtk1.o graphics-info-navigation-gtk2.o graphics-info-preferences.o graphics-info-network.o graphics-info-mutate.o graphics-info-lsq.o graphics-info-pick.o graphics-info-refmac.o graphics-info-render.o graphics-info-residues.o graphics-info-refine.o graphics-info-scripting.o graphics-info-state.o graphics-info-statics.o graphics-info-superpose.o graphics-ligand-view.o gl-matrix.o gtk-manual.o gtk-widget-conversion-utils.o gtk2-interface.o lbg-callbacks-outer.o lbg-interface.o molecule-class-info.o molecule-class-info-alignment.o molecule-class-info-analysis.o molecule-class-info-bonds.o molecule-class-info-build.o molecule-class-info-maps.o molecule-class-info-maps-2.o molecule-class-info-molecular-symmetry.o molecule-class-info-kdc.o molecule-class-info-dots.o molecule-class-info-dots-internal.o molecule-class-info-other.o molecule-class-info-mutate.o molecule-class-info-residues.o molecule-class-info-refine.o molecule-class-info-kk.o molecule-class-info-surface.o molecule-class-info-string.o molecule-class-info-patterson.o molecule-class-info-ncs.o molecule-class-info-mol-tris.o molecule-class-info-widget-work.o nsv.o pick.o probe-clash-score.o protein_db-interface.o python-classes.o read-phs.o read-cif.o rama_mousey.o rama_plot.o restraints-editor.o sound.o sdf-interface.o sequence-view.o seq-view-interface.o support.o support-gtk2-extras.o testing.o testing-2.o trackball.o user-mods.o xmap-utils.o spherical-density.o validation.o view.o coot_wrap_python.o -fopenmp -Wl,-export-dynamic -P -pthread -Wl,--export-dynamic -pthread -Wl,-export-dynamic ../lbg/.libs/libcoot-lidia.so -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: ../pli/.libs/libcoot-pli.so ../ligand/.libs/libcoot-ligand.so ../lidia-core/.libs/libcoot-lidia-core.so ../goograph/.libs/libcoot-goograph.so ../density-contour/.libs/libcoot-isosurface.so ../build/.libs/libcoot-cabuild.so ../skeleton/.libs/libcoot-skeleton.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/angles/.libs/libcoot-AngleInfo.so ../angles/.libs/libcoot-AngleInfo.so ../db-main/.libs/libcoot-db-main.so ../high-res/.libs/libcoot-high-res.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coords/.libs/libcoot-coords.so ../ideal/.libs/libcoot-ideal.so ../geometry/.libs/libcoot-geometry.so ../coords/.libs/libcoot-coords.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs/libcoot-ligand.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs/libcoot-ideal.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs/libcootaneer.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs/libcoot-db-main.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs/libccp4mg-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-extras.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs/libcoot-analysis.so ../ccp4mg-utils/.libs/libccp4mg-utils.so -lpng15 ../coot-utils/.libs/libcoot-map-heavy.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-map-utils.so ../coot-utils/.libs/libcoot-coord-extras.so ../coot-utils/.libs/libcoot-coord-utils.so ../utils/.libs/libcoot-utils.so ../mini-mol/.libs/libcoot-mini-mol.so ../analysis/.libs/libcoot-analysis.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs/libcoot-coord-utils.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs/libcoot-lidia-core.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs/libcoot-geometry.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs/libcoot-mini-mol.so /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs/libcoot-utils.so ../protein_db/.libs/libcoot-protein-db.so ../cootilus/.libs/libcootilus.so ../cootaneer/.libs/libcootaneer.so ../compat/.libs/libcoot-compat.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-ccp4.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cif.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-minimol.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-mmdb.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-cns.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-phs.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-contrib.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libclipper-core.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/librfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libfftw.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4c.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libssm.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libmmdb2.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libguilegtk-2.0.so -lgthread-2.0 /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libguile.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgmp.so -lcrypt /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libltdl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgtkglext-x11-1.0.so -L/usr/X11R6/lib /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgdkglext-x11-1.0.so -lXmu -lXt -lSM -lICE -lgmodule-2.0 /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libglut.so -lGLU -lGL -lXext -lX11 -lXxf86vm -L/usr/X11R6/lib64 /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgnomecanvas-2.so -lgailutil /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libart_lgpl_2.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgsl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgslcblas.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcurl.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libidn2.so -lssl -lcrypto -lldap -llber -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lutil /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libgoocanvas.so /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libsqlite3.so -lz -lm -ldl -lpthread -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lcairo -lpango-1.0 -lfontconfig -lgobject-2.0 -lglib-2.0 -lfreetype -fopenmp -pthread -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/src' Making all in data make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data' Making all in rama-coeffs make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/rama-coeffs' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/rama-coeffs' Making all in cho-models make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/cho-models' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/cho-models' Making all in cho-acedrg make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/cho-acedrg' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/cho-acedrg' Making all in metal make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/metal' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/metal' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data' make[2]: Nothing to be done for `all-am'. make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data' Making all in man make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/man' make[1]: Nothing to be done for `all'. make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/man' Making all in rama-data make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/rama-data' make[1]: Nothing to be done for `all'. make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/rama-data' Making all in doc make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/doc' make[1]: Nothing to be done for `all'. make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/doc' Making all in rcrane make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/rcrane' make[1]: Nothing to be done for `all'. make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/rcrane' Making all in pixmaps make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pixmaps' Making all in icons make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pixmaps/icons' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pixmaps/icons' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pixmaps' make[2]: Nothing to be done for `all-am'. make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pixmaps' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pixmaps' make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre' sed -e 's/#GTK2 //' ./cootrc.template > cootrc make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre' 1 --------------------------------------------------------------- make install 1 ---------------------------------------------------------------- Making install in auxil make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil' Making install in catcheck make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/catcheck' make[3]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/catcheck' make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. make[3]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/catcheck' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/catcheck' Making install in rama make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/rama' make[3]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/rama' make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. make[3]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/rama' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/rama' Making install in sec-str make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/sec-str' make[3]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/sec-str' make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. make[3]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/sec-str' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/sec-str' Making install in strand-analysis make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/strand-analysis' make[3]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/strand-analysis' make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. make[3]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/strand-analysis' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/strand-analysis' Making install in vectors make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/vectors' make[3]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/vectors' make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. make[3]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/vectors' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil/vectors' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil' make[3]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil' make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. make[3]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/auxil' Making install in scheme make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/scheme' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/scheme' make[2]: Nothing to be done for `install-exec-am'. /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/scheme' /bin/install -c -m 644 0-auto-rot.scm coot-utils.scm get-ebi.scm mutate.scm background-demo.scm demo-script.scm gtkin.scm my-readline.scm bit.scm extra-top-level.scm hello.scm raster3d.scm brute-lsqman.scm file-utils.scm junk.scm refmac.scm coot-gui.scm filter.scm libcheck.scm simple.scm coot.scm get-ebi.save.scm local-code.scm trivial.scm gap.scm remote-control.scm povray.scm coot-lsq.scm shelx.scm group-settings.scm fitting.scm americanisms.scm tips.scm tips-gui.scm generic-objects.scm cns2coot.scm extensions.scm ncs.scm create-server.scsh coot-crash-catcher.scm '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/scheme' /bin/install -c -m 644 snarf-coot-docs.scm clear-backup.scm bones-reader.scm matrices.scm fascinating-things.scm shelx-extensions.scm parse-pisa-xml.scm check-for-updates.scm 3d-generator-import.scm gui-hole.scm gui-prosmart.scm get-recent-pdbe.scm json-reader.scm jligand.scm jligand-gui.scm redefine-functions.scm user-define-restraints.scm template-key-bindings.scm gui-add-linked-cho.scm ligand-check.scm run-mogul.scm contact-score-isolated-ligand.scm enhanced-ligand.scm gui-ligand-sliders.scm dictionary-generators.scm cho-restraints-from-models.scm interactive-nudge-residues.scm acedrg-link.scm add-linked-cho.scm find-baddies.scm sharpen-blur.scm dynamic-atom-overlaps-and-other-outliers.scm '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/scheme' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/scheme' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/scheme' Making install in python make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/python' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/python' make[2]: Nothing to be done for `install-exec-am'. /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot' /bin/install -c -m 644 coot_utils.py get_ebi.py mutate.py background_demo.py hello.py raster3d.py brute_lsqman.py refmac.py coot_gui.py filter.py libcheck.py coot_load_modules.py local_code.py gap.py remote_control.py povray.py coot_lsq.py shelx.py group_settings.py fitting.py americanisms.py tips.py tips_gui.py generic_objects.py cns2coot.py extensions.py ncs.py create_server.py python_coot_docs.py clear_backup.py bones_reader.py shelx_extensions.py parse_pisa_xml.py check_for_updates.py 3d_generator_import.py gui_hole.py gui_prosmart.py get_recent_pdbe.py jligand.py jligand_gui.py '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot' /bin/install -c -m 644 redefine_functions.py user_define_restraints.py template_key_bindings.py gui_add_linked_cho.py ligand_check.py run_mogul.py contact_score_isolated_ligand.py gui_contact_score_isolated_ligand.py dictionary_generators.py cho_restraints_from_models.py interactive_nudge_residues.py pdbe_validation_data.py pathology_plots.py ligand_validation_sliders.py enhanced_ligand.py gui_ligand_sliders.py sharpen_blur.py acedrg_link.py coot_toolbuttons.py rcrane_loader.py add_linked_cho.py find_baddies.py dynamic_atom_overlaps_and_other_outliers.py chemical_feature_clusters.py res_spec_utils.py coot_output_to_window.py '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot' Byte-compiling python modules... coot_utils.pyget_ebi.pymutate.pybackground_demo.pyhello.pyraster3d.pybrute_lsqman.pyrefmac.pycoot_gui.pyfilter.pylibcheck.pycoot_load_modules.pylocal_code.pygap.pyremote_control.pypovray.pycoot_lsq.pyshelx.pygroup_settings.pyfitting.pyamericanisms.pytips.pytips_gui.pygeneric_objects.pycns2coot.pyextensions.pyncs.pycreate_server.pypython_coot_docs.pyclear_backup.pybones_reader.pyshelx_extensions.pyparse_pisa_xml.pycheck_for_updates.py3d_generator_import.pygui_hole.pygui_prosmart.pyget_recent_pdbe.pyjligand.pyjligand_gui.pyredefine_functions.pyuser_define_restraints.pytemplate_key_bindings.pygui_add_linked_cho.pyligand_check.pyrun_mogul.pycontact_score_isolated_ligand.pygui_contact_score_isolated_ligand.pydictionary_generators.pycho_restraints_from_models.pyinteractive_nudge_residues.pypdbe_validation_data.pypathology_plots.pyligand_validation_sliders.pyenhanced_ligand.pygui_ligand_sliders.pysharpen_blur.pyacedrg_link.pycoot_toolbuttons.pyrcrane_loader.pyadd_linked_cho.pyfind_baddies.pydynamic_atom_overlaps_and_other_outliers.pychemical_feature_clusters.pyres_spec_utils.pycoot_output_to_window.py Byte-compiling python modules (optimized versions) ... coot_utils.pyget_ebi.pymutate.pybackground_demo.pyhello.pyraster3d.pybrute_lsqman.pyrefmac.pycoot_gui.pyfilter.pylibcheck.pycoot_load_modules.pylocal_code.pygap.pyremote_control.pypovray.pycoot_lsq.pyshelx.pygroup_settings.pyfitting.pyamericanisms.pytips.pytips_gui.pygeneric_objects.pycns2coot.pyextensions.pyncs.pycreate_server.pypython_coot_docs.pyclear_backup.pybones_reader.pyshelx_extensions.pyparse_pisa_xml.pycheck_for_updates.py3d_generator_import.pygui_hole.pygui_prosmart.pyget_recent_pdbe.pyjligand.pyjligand_gui.pyredefine_functions.pyuser_define_restraints.pytemplate_key_bindings.pygui_add_linked_cho.pyligand_check.pyrun_mogul.pycontact_score_isolated_ligand.pygui_contact_score_isolated_ligand.pydictionary_generators.pycho_restraints_from_models.pyinteractive_nudge_residues.pypdbe_validation_data.pypathology_plots.pyligand_validation_sliders.pyenhanced_ligand.pygui_ligand_sliders.pysharpen_blur.pyacedrg_link.pycoot_toolbuttons.pyrcrane_loader.pyadd_linked_cho.pyfind_baddies.pydynamic_atom_overlaps_and_other_outliers.pychemical_feature_clusters.pyres_spec_utils.pycoot_output_to_window.py make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/python' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/python' Making install in pdb-templates make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pdb-templates' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pdb-templates' make[2]: Nothing to be done for `install-exec-am'. /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot' /bin/install -c -m 644 ASN-NAG-via-NAG-ASN.pdb pyranose-pyranose-via-BETA1-4.pdb pyranose-pyranose-via-ALPHA1-2.pdb pyranose-pyranose-via-ALPHA1-3.pdb pyranose-pyranose-via-ALPHA1-6.pdb SIA-pyranose-via-ALPHA2-3.pdb link-by-torsion-to-pyranose-core-ALPHA1-2.tab link-by-torsion-to-pyranose-core-ALPHA1-3.tab link-by-torsion-to-FUC-core-ALPHA1-3.tab link-by-torsion-to-FUC-core-ALPHA1-2.tab link-by-torsion-to-FUC-core-ALPHA1-6.tab link-by-torsion-to-NAG-core-NAG-SER.tab link-by-torsion-to-pyranose-core-ALPHA1-6.tab link-by-torsion-to-pyranose-core-ALPHA2-3.tab link-by-torsion-to-pyranose-core-BETA1-2.tab link-by-torsion-to-pyranose-core-BETA1-3.tab link-by-torsion-to-pyranose-core-BETA1-4.tab link-by-torsion-to-pyranose-core-BETA1-6.tab link-by-torsion-to-pyranose-core-NAG-ASN.tab link-by-torsion-to-pyranose-core-XYP-BMA.tab NAG-decorations.tab BMA-decorations.tab MAN-decorations.tab GLC-decorations.tab GAL-decorations.tab FUC-decorations.tab FUL-decorations.tab XYP-decorations.tab theor-helix-70.pdb '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pdb-templates' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pdb-templates' Making install in macros make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/macros' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/macros' make[2]: Nothing to be done for `install-exec-am'. make[2]: Nothing to be done for `install-data-am'. make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/macros' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/macros' Making install in compat make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/compat' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/compat' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/compat' /bin/sh ../libtool --mode=install /bin/install -c libcoot-compat.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 coot-getopt.h coot-sysdep.h getopt_int.h sleep-fixups.h '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/compat' libtool: install: /bin/install -c .libs/libcoot-compat.so.0.0.0 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-compat.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-compat.so.0.0.0 libcoot-compat.so.0 || { rm -f libcoot-compat.so.0 && ln -s libcoot-compat.so.0.0.0 libcoot-compat.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-compat.so.0.0.0 libcoot-compat.so || { rm -f libcoot-compat.so && ln -s libcoot-compat.so.0.0.0 libcoot-compat.so; }; }) libtool: install: /bin/install -c .libs/libcoot-compat.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-compat.la libtool: install: /bin/install -c .libs/libcoot-compat.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-compat.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-compat.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-compat.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/compat' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/compat' Making install in utils make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/utils' /bin/sh ../libtool --mode=install /bin/install -c libcoot-utils.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 coot-utils.hh coot-fasta.hh dodec.hh win-compat.hh ctpl_stl.h ctpl.h pir-alignment.hh align-utils.hh split-indices.hh radix.hh logging.hh backward.hpp '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/utils' libtool: install: /bin/install -c .libs/libcoot-utils.so.0.0.0 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-utils.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-utils.so.0.0.0 libcoot-utils.so.0 || { rm -f libcoot-utils.so.0 && ln -s libcoot-utils.so.0.0.0 libcoot-utils.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-utils.so.0.0.0 libcoot-utils.so || { rm -f libcoot-utils.so && ln -s libcoot-utils.so.0.0.0 libcoot-utils.so; }; }) libtool: install: /bin/install -c .libs/libcoot-utils.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-utils.la libtool: install: /bin/install -c .libs/libcoot-utils.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-utils.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-utils.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-utils.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils' Making install in protein_db make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/protein_db' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/protein_db' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/protein_db' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/protein_db' /bin/sh ../libtool --mode=install /bin/install -c libcoot-protein-db.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 protein_db.h protein_db_utils.h rna_db.h '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/protein_db' /bin/install -c -m 644 protein.db '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/protein_db' libtool: install: /bin/install -c .libs/libcoot-protein-db.so.0.0.0 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-protein-db.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-protein-db.so.0.0.0 libcoot-protein-db.so.0 || { rm -f libcoot-protein-db.so.0 && ln -s libcoot-protein-db.so.0.0.0 libcoot-protein-db.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-protein-db.so.0.0.0 libcoot-protein-db.so || { rm -f libcoot-protein-db.so && ln -s libcoot-protein-db.so.0.0.0 libcoot-protein-db.so; }; }) libtool: install: /bin/install -c .libs/libcoot-protein-db.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-protein-db.la libtool: install: /bin/install -c .libs/libcoot-protein-db.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-protein-db.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-protein-db.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-protein-db.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/protein_db' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/protein_db' Making install in mini-mol make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/mini-mol' /bin/sh ../libtool --mode=install /bin/install -c libcoot-mini-mol.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 mini-mol.hh mini-mol-utils.hh atom-quads.hh '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/mini-mol' libtool: install: warning: relinking `libcoot-mini-mol.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-mini-mol.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib mini-mol.lo mini-mol-utils.lo atom-quads.lo ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -inst-prefix-dir /) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/mini-mol.o .libs/mini-mol-utils.o .libs/atom-quads.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot-utils -lclipper-ccp4 -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lpthread -lccp4c -lmmdb2 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-mini-mol.so.0 -o .libs/libcoot-mini-mol.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-mini-mol.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-mini-mol.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-mini-mol.so.0.0.0 libcoot-mini-mol.so.0 || { rm -f libcoot-mini-mol.so.0 && ln -s libcoot-mini-mol.so.0.0.0 libcoot-mini-mol.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-mini-mol.so.0.0.0 libcoot-mini-mol.so || { rm -f libcoot-mini-mol.so && ln -s libcoot-mini-mol.so.0.0.0 libcoot-mini-mol.so; }; }) libtool: install: /bin/install -c .libs/libcoot-mini-mol.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-mini-mol.la libtool: install: /bin/install -c .libs/libcoot-mini-mol.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-mini-mol.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-mini-mol.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-mini-mol.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol' Making install in geometry make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/geometry' /bin/sh ../libtool --mode=install /bin/install -c libcoot-geometry.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 protein-geometry.hh read-sbase.hh lbg-graph.hh srs-interface.hh dict-utils.hh dict-mismatches.hh energy-lib.hh match-results.hh hb-types.hh main-chain.hh residue-and-atom-specs.hh chem_mods.hh mol-utils.hh mol-utils-2.hh bonded-quad.hh hydrophobic.hh '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/geometry' libtool: install: warning: relinking `libcoot-geometry.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-geometry.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib cif-parse.lo protein-geometry.lo protein-geometry-mmdb.lo read-sbase.lo energy-lib.lo mol-utils.lo dictionary-residue.lo link.lo glyco-tools.lo dict-utils.lo chem_mods.lo srs-interface.lo protein-donor-acceptors.lo lbg-graph.lo dreiding.lo main-chain.lo residue-and-atom-specs.lo mol-utils-2.lo hydrophobic.lo cif-parse-link.lo cif-parse-mon-lib.lo ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -inst-prefix-dir /) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/cif-parse.o .libs/protein-geometry.o .libs/protein-geometry-mmdb.o .libs/read-sbase.o .libs/energy-lib.o .libs/mol-utils.o .libs/dictionary-residue.o .libs/link.o .libs/glyco-tools.o .libs/dict-utils.o .libs/chem_mods.o .libs/srs-interface.o .libs/protein-donor-acceptors.o .libs/lbg-graph.o .libs/dreiding.o .libs/main-chain.o .libs/residue-and-atom-specs.o .libs/mol-utils-2.o .libs/hydrophobic.o .libs/cif-parse-link.o .libs/cif-parse-mon-lib.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot-mini-mol -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-utils -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lpthread -lccp4c -lmmdb2 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-geometry.so.0 -o .libs/libcoot-geometry.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-geometry.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-geometry.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-geometry.so.0.0.0 libcoot-geometry.so.0 || { rm -f libcoot-geometry.so.0 && ln -s libcoot-geometry.so.0.0.0 libcoot-geometry.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-geometry.so.0.0.0 libcoot-geometry.so || { rm -f libcoot-geometry.so && ln -s libcoot-geometry.so.0.0.0 libcoot-geometry.so; }; }) libtool: install: /bin/install -c .libs/libcoot-geometry.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-geometry.la libtool: install: /bin/install -c .libs/libcoot-geometry.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-geometry.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-geometry.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-geometry.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin' /bin/sh ../libtool --mode=install /bin/install -c coot-compare-dictionaries coot-make-shelx-restraints coot-available-comp-id '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin' libtool: install: /bin/install -c .libs/coot-compare-dictionaries //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin/coot-compare-dictionaries libtool: install: /bin/install -c .libs/coot-make-shelx-restraints //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin/coot-make-shelx-restraints libtool: install: /bin/install -c .libs/coot-available-comp-id //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin/coot-available-comp-id make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry' Making install in lidia-core make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/lidia-core' /bin/sh ../libtool --mode=install /bin/install -c libcoot-lidia-core.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 lbg-shared.hh lbg-molfile.hh lig-build.hh rdkit-interface.hh use-rdkit.hh cod-types.hh neighbour-sorter.hh bond-record-container-t.hh bond-table-record-t.hh cod-atom-types.hh cod-atom-type-t.hh primes.hh chemical-feature-clusters.hh third-neighbour-info-t.hh get-residue.hh '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/lidia-core' libtool: install: warning: relinking `libcoot-lidia-core.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-lidia-core.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib lbg-shared.lo lbg-molfile.lo lig-build.lo rdkit-interface.lo cod-types.lo atom-types.lo bond-record-container-t.lo cod-atom-type-t.lo cod-atom-types.lo bond-table-record-t.lo chemical-feature-clusters.lo get-residue.lo ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lsqlite3 -inst-prefix-dir /) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/lbg-shared.o .libs/lbg-molfile.o .libs/lig-build.o .libs/rdkit-interface.o .libs/cod-types.o .libs/atom-types.o .libs/bond-record-container-t.o .libs/cod-atom-type-t.o .libs/cod-atom-types.o .libs/bond-table-record-t.o .libs/chemical-feature-clusters.o .libs/get-residue.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot-geometry -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-mini-mol -lcoot-utils -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lccp4c -lmmdb2 -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lutil -lsqlite3 -lz -ldl -lpthread -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-export-dynamic -Wl,-soname -Wl,libcoot-lidia-core.so.0 -o .libs/libcoot-lidia-core.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-lidia-core.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-lidia-core.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-lidia-core.so.0.0.0 libcoot-lidia-core.so.0 || { rm -f libcoot-lidia-core.so.0 && ln -s libcoot-lidia-core.so.0.0.0 libcoot-lidia-core.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-lidia-core.so.0.0.0 libcoot-lidia-core.so || { rm -f libcoot-lidia-core.so && ln -s libcoot-lidia-core.so.0.0.0 libcoot-lidia-core.so; }; }) libtool: install: /bin/install -c .libs/libcoot-lidia-core.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-lidia-core.la libtool: install: /bin/install -c .libs/libcoot-lidia-core.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-lidia-core.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-lidia-core.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-lidia-core.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core' Making install in coot-utils make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/coot-utils' /bin/sh ../libtool --mode=install /bin/install -c libcoot-coord-utils.la libcoot-coord-extras.la libcoot-map-utils.la libcoot-map-heavy.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 peak-search.hh coot-trim.hh coot-coord-utils.hh coot-map-utils.hh coot-coord-extras.hh coot-map-heavy.hh coot-lsq-types.h coot-shelx.hh coot-rama.hh xmap-stats.hh coot-h-bonds.hh lsq-improve.hh coot-hole.hh read-sm-cif.hh bonded-pairs.hh tree.hh helix-analysis.hh elastic.hh emma.hh glyco-torsions.hh coot-least-squares.hh coot-density-stats.hh atom-overlaps.hh reduce.hh atom-selection-container.hh contact-info.hh plane-utils.hh secondary-structure-headers.hh c-beta-deviations.hh jed-flip.hh lidia-core-functions.hh bonded-atoms.hh spherical-harmonics.hh helix-like.hh merge-atom-selections.hh contacts-by-bricks.hh amp-reso.hh stack-and-pair.hh atom-tools.hh segmap.hh '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/coot-utils' libtool: install: warning: relinking `libcoot-coord-utils.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-coord-utils.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib coot-coord-utils.lo coot-coord-utils-nucleotides.lo coot-rama.lo coot-h-bonds.lo hole.lo read-sm-cif.lo bonded-pairs.lo helix-analysis.lo elastic.lo glyco-torsions.lo coot-least-squares.lo atom-overlaps.lo reduce.lo atom-selection-container.lo contact-info.lo coot-shelx-ins.lo secondary-structure-headers.lo plane-utils.lo c-beta-deviations.lo lidia-core-functions.lo atom-tools.lo bonded-atoms.lo bricks.lo helix-like.lo merge-atom-selections.lo contacts-by-bricks.lo stack-and-pair.lo fast-eigens.lo strand-fragments.lo sfcalc-genmap.lo cablam-markup.lo coot_shiftfield.lo shiftfield.lo slurp-map.lo fib-sphere.lo polar-atoms.lo merge-molecules.lo fragment-container.lo mutate.lo merge-C-and-N-terminii.lo ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -inst-prefix-dir /) /bin/install -c -m 644 fast-eigens.hh strand-fragments.hh sfcalc-genmap.hh cablam-markup.hh slurp-map.hh merge-molecules.hh coot_shiftfield.h shiftfield.h fib-sphere.hh pepflip-using-difference-map.hh polar-atoms.hh fragment-container.hh map-index.hh atom-tree.hh jed-flip.hh atom-vertex.hh '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/coot-utils' libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/coot-coord-utils.o .libs/coot-coord-utils-nucleotides.o .libs/coot-rama.o .libs/coot-h-bonds.o .libs/hole.o .libs/read-sm-cif.o .libs/bonded-pairs.o .libs/helix-analysis.o .libs/elastic.o .libs/glyco-torsions.o .libs/coot-least-squares.o .libs/atom-overlaps.o .libs/reduce.o .libs/atom-selection-container.o .libs/contact-info.o .libs/coot-shelx-ins.o .libs/secondary-structure-headers.o .libs/plane-utils.o .libs/c-beta-deviations.o .libs/lidia-core-functions.o .libs/atom-tools.o .libs/bonded-atoms.o .libs/bricks.o .libs/helix-like.o .libs/merge-atom-selections.o .libs/contacts-by-bricks.o .libs/stack-and-pair.o .libs/fast-eigens.o .libs/strand-fragments.o .libs/sfcalc-genmap.o .libs/cablam-markup.o .libs/coot_shiftfield.o .libs/shiftfield.o .libs/slurp-map.o .libs/fib-sphere.o .libs/polar-atoms.o .libs/merge-molecules.o .libs/fragment-container.o .libs/mutate.o .libs/merge-C-and-N-terminii.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot-lidia-core -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lsqlite3 -lz -lcoot-geometry -lcoot-mini-mol -lcoot-utils -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lccp4c -lmmdb2 -lgsl -lgslcblas -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-export-dynamic -Wl,-export-dynamic -Wl,-soname -Wl,libcoot-coord-utils.so.0 -o .libs/libcoot-coord-utils.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-coord-utils.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-coord-utils.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-coord-utils.so.0.0.0 libcoot-coord-utils.so.0 || { rm -f libcoot-coord-utils.so.0 && ln -s libcoot-coord-utils.so.0.0.0 libcoot-coord-utils.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-coord-utils.so.0.0.0 libcoot-coord-utils.so || { rm -f libcoot-coord-utils.so && ln -s libcoot-coord-utils.so.0.0.0 libcoot-coord-utils.so; }; }) libtool: install: /bin/install -c .libs/libcoot-coord-utils.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-coord-utils.la libtool: install: warning: relinking `libcoot-coord-extras.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-coord-extras.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib coot-coord-extras.lo coot-coord-lsq.lo coot-tree-extras.lo water-coordination.lo lsq-improve.lo coot-coord-utils-glyco.lo jed-flip.lo libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -inst-prefix-dir /) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/coot-coord-extras.o .libs/coot-coord-lsq.o .libs/coot-tree-extras.o .libs/water-coordination.o .libs/lsq-improve.o .libs/coot-coord-utils-glyco.o .libs/jed-flip.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot-coord-utils -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-lidia-core -lsqlite3 -lz -lgsl -lgslcblas -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil -lcoot-geometry -lcoot-mini-mol -lcoot-utils -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lpthread -lccp4c -lmmdb2 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-coord-extras.so.0 -o .libs/libcoot-coord-extras.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-coord-extras.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-coord-extras.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-coord-extras.so.0.0.0 libcoot-coord-extras.so.0 || { rm -f libcoot-coord-extras.so.0 && ln -s libcoot-coord-extras.so.0.0.0 libcoot-coord-extras.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-coord-extras.so.0.0.0 libcoot-coord-extras.so || { rm -f libcoot-coord-extras.so && ln -s libcoot-coord-extras.so.0.0.0 libcoot-coord-extras.so; }; }) libtool: install: /bin/install -c .libs/libcoot-coord-extras.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-coord-extras.la libtool: install: warning: relinking `libcoot-map-utils.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-map-utils.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib coot-map-utils.lo peak-search.lo peak-search-from-list.lo trim.lo xmap-stats.lo maps-spherical.lo pepflip-using-difference-map.lo libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm -lpthread -inst-prefix-dir /) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/coot-map-utils.o .libs/peak-search.o .libs/peak-search-from-list.o .libs/trim.o .libs/xmap-stats.o .libs/maps-spherical.o .libs/pepflip-using-difference-map.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot-coord-utils -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-lidia-core -lsqlite3 -lz -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil -lcoot-geometry -lcoot-mini-mol -lcoot-utils -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lccp4c -lmmdb2 -lgsl -lgslcblas -lpthread -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-map-utils.so.0 -o .libs/libcoot-map-utils.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-map-utils.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-map-utils.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-map-utils.so.0.0.0 libcoot-map-utils.so.0 || { rm -f libcoot-map-utils.so.0 && ln -s libcoot-map-utils.so.0.0.0 libcoot-map-utils.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-map-utils.so.0.0.0 libcoot-map-utils.so || { rm -f libcoot-map-utils.so && ln -s libcoot-map-utils.so.0.0.0 libcoot-map-utils.so; }; }) libtool: install: /bin/install -c .libs/libcoot-map-utils.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-map-utils.la libtool: install: warning: relinking `libcoot-map-heavy.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -DHAVE_GSL -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-map-heavy.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib coot-map-heavy.lo coot-fffear.lo spherical-harmonics.lo segmap.lo libcoot-map-utils.la libcoot-coord-utils.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm -lpthread -inst-prefix-dir /) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/coot-map-heavy.o .libs/coot-fffear.o .libs/spherical-harmonics.o .libs/segmap.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot-map-utils -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-coord-utils -lcoot-lidia-core -lsqlite3 -lz -lcoot-geometry -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil -lcoot-mini-mol -lcoot-utils -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lccp4c -lmmdb2 -lgsl -lgslcblas -lpthread -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-map-heavy.so.0 -o .libs/libcoot-map-heavy.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-map-heavy.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-map-heavy.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-map-heavy.so.0.0.0 libcoot-map-heavy.so.0 || { rm -f libcoot-map-heavy.so.0 && ln -s libcoot-map-heavy.so.0.0.0 libcoot-map-heavy.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-map-heavy.so.0.0.0 libcoot-map-heavy.so || { rm -f libcoot-map-heavy.so && ln -s libcoot-map-heavy.so.0.0.0 libcoot-map-heavy.so; }; }) libtool: install: /bin/install -c .libs/libcoot-map-heavy.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-map-heavy.la libtool: install: /bin/install -c .libs/libcoot-coord-utils.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-coord-utils.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-coord-utils.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-coord-utils.a libtool: install: /bin/install -c .libs/libcoot-coord-extras.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-coord-extras.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-coord-extras.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-coord-extras.a libtool: install: /bin/install -c .libs/libcoot-map-utils.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-map-utils.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-map-utils.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-map-utils.a libtool: install: /bin/install -c .libs/libcoot-map-heavy.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-map-heavy.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-map-heavy.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-map-heavy.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin' /bin/sh ../libtool --mode=install /bin/install -c mmrrcc '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin' libtool: install: /bin/install -c .libs/mmrrcc //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin/mmrrcc make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils' Making install in angles make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/angles' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/angles' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/angles' /bin/sh ../libtool --mode=install /bin/install -c libcoot-AngleInfo.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 AngleInfo.h ncube.h wrapped-ncube.h '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/angles' libtool: install: /bin/install -c .libs/libcoot-AngleInfo.so.0.0.0 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-AngleInfo.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-AngleInfo.so.0.0.0 libcoot-AngleInfo.so.0 || { rm -f libcoot-AngleInfo.so.0 && ln -s libcoot-AngleInfo.so.0.0.0 libcoot-AngleInfo.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-AngleInfo.so.0.0.0 libcoot-AngleInfo.so || { rm -f libcoot-AngleInfo.so && ln -s libcoot-AngleInfo.so.0.0.0 libcoot-AngleInfo.so; }; }) libtool: install: /bin/install -c .libs/libcoot-AngleInfo.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-AngleInfo.la libtool: install: /bin/install -c .libs/libcoot-AngleInfo.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-AngleInfo.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-AngleInfo.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-AngleInfo.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/angles' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/angles' Making install in ccp4mg-utils make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/ccp4mg-utils' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/sh ../libtool --mode=install /bin/install -c libccp4mg-utils.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 geomutil.h mgtree.h cartesian.h matrix.h quat.h ppmutil.h '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/ccp4mg-utils' libtool: install: /bin/install -c .libs/libccp4mg-utils.so.0.0.0 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4mg-utils.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libccp4mg-utils.so.0.0.0 libccp4mg-utils.so.0 || { rm -f libccp4mg-utils.so.0 && ln -s libccp4mg-utils.so.0.0.0 libccp4mg-utils.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libccp4mg-utils.so.0.0.0 libccp4mg-utils.so || { rm -f libccp4mg-utils.so && ln -s libccp4mg-utils.so.0.0.0 libccp4mg-utils.so; }; }) libtool: install: /bin/install -c .libs/libccp4mg-utils.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4mg-utils.la libtool: install: /bin/install -c .libs/libccp4mg-utils.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4mg-utils.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4mg-utils.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libccp4mg-utils.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils' Making install in db-main make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/db-main' /bin/sh ../libtool --mode=install /bin/install -c libcoot-db-main.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 db-main.hh db-strands.hh '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/db-main' libtool: install: warning: relinking `libcoot-db-main.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-db-main.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib db-main.lo db-strands.lo ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -inst-prefix-dir /) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/db-main.o .libs/db-strands.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-coord-utils -lcoot-lidia-core -lsqlite3 -lz -lgsl -lgslcblas -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil -lcoot-geometry -lcoot-mini-mol -lcoot-utils -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lpthread -lccp4c -lmmdb2 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-db-main.so.0 -o .libs/libcoot-db-main.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-db-main.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-db-main.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-db-main.so.0.0.0 libcoot-db-main.so.0 || { rm -f libcoot-db-main.so.0 && ln -s libcoot-db-main.so.0.0.0 libcoot-db-main.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-db-main.so.0.0.0 libcoot-db-main.so || { rm -f libcoot-db-main.so && ln -s libcoot-db-main.so.0.0.0 libcoot-db-main.so; }; }) libtool: install: /bin/install -c .libs/libcoot-db-main.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-db-main.la libtool: install: /bin/install -c .libs/libcoot-db-main.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-db-main.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-db-main.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-db-main.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main' Making install in analysis make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/analysis' /bin/sh ../libtool --mode=install /bin/install -c libcoot-analysis.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 bfkurt.hh mogul-interface.hh stats.hh '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/analysis' libtool: install: warning: relinking `libcoot-analysis.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-analysis.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib bfkurt.lo mogul.lo kolmogorov.lo stats.lo cablam.lo typed-distances.lo b-factor-histogram.lo daca.lo ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -inst-prefix-dir /) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/bfkurt.o .libs/mogul.o .libs/kolmogorov.o .libs/stats.o .libs/cablam.o .libs/typed-distances.o .libs/b-factor-histogram.o .libs/daca.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot-coord-utils -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-lidia-core -lsqlite3 -lz -lcoot-geometry -lcoot-mini-mol -lcoot-utils -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lccp4c -lmmdb2 -lgsl -lgslcblas -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-export-dynamic -Wl,-soname -Wl,libcoot-analysis.so.0 -o .libs/libcoot-analysis.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-analysis.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-analysis.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-analysis.so.0.0.0 libcoot-analysis.so.0 || { rm -f libcoot-analysis.so.0 && ln -s libcoot-analysis.so.0.0.0 libcoot-analysis.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-analysis.so.0.0.0 libcoot-analysis.so || { rm -f libcoot-analysis.so && ln -s libcoot-analysis.so.0.0.0 libcoot-analysis.so; }; }) libtool: install: /bin/install -c .libs/libcoot-analysis.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-analysis.la libtool: install: /bin/install -c .libs/libcoot-analysis.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-analysis.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-analysis.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-analysis.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin' /bin/sh ../libtool --mode=install /bin/install -c coot-bfactan '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin' libtool: install: /bin/install -c .libs/coot-bfactan //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin/coot-bfactan make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis' Making install in cootaneer make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot' /bin/sh ../libtool --mode=install /bin/install -c libcootaneer.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 cootaneer-llk-2.40.dat '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot' libtool: install: /bin/install -c .libs/libcootaneer.so.0.0.0 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcootaneer.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcootaneer.so.0.0.0 libcootaneer.so.0 || { rm -f libcootaneer.so.0 && ln -s libcootaneer.so.0.0.0 libcootaneer.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcootaneer.so.0.0.0 libcootaneer.so || { rm -f libcootaneer.so && ln -s libcootaneer.so.0.0.0 libcootaneer.so; }; }) libtool: install: /bin/install -c .libs/libcootaneer.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcootaneer.la libtool: install: /bin/install -c .libs/libcootaneer.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcootaneer.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcootaneer.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcootaneer.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer' Making install in ideal make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/libexec' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/ideal' /bin/sh ../libtool --mode=install /bin/install -c libcoot-ideal.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c coot-mini-rsr coot-ligand-validation '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin' /bin/sh ../libtool --mode=install /bin/install -c mini-rsr-bin coot-ligand-validation-bin '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/libexec' /bin/install -c -m 644 test-indexing.hh simple-restraint.hh pepflip.hh regularize-minimol.hh lograma.h zo-rama.hh phi-psi.hh process-dfs-in-range.hh parallel-planes.hh torsion-bonds.hh extra-restraints.hh model-bond-deltas.hh refinement-lights.hh refinement-results-t.hh rama-types.hh new-linked-residue-t.hh '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/ideal' libtool: install: warning: relinking `libcoot-ideal.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DCLIPPER_HAS_TOP8000 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -DMMDB_HAS_LINK_DISTANCE -DHAVE_GSL -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -lpthread -o libcoot-ideal.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib simple-restraint.lo make-restraints.lo ng.lo chi-squareds.lo mods.lo distortion.lo chirals.lo flanking.lo gradients.lo extra-restraints.lo pepflip.lo regularize-minimol.lo lograma.lo process-dfs-in-range.lo crankshaft.lo extra-restraints-kk.lo simple-restraint-kk.lo torsion-bonds.lo coot-compare-residues.lo link-restraints.lo parallel-planes.lo pull-restraint.lo trans-peptide.lo model-bond-deltas.lo write-png.lo zo-rama.lo phi-psi.lo neutron.lo ../coot-utils/libcoot-map-heavy.la ../coot-utils/libcoot-map-utils.la ../geometry/libcoot-geometry.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm -lpng15 -lm -inst-prefix-dir /) libtool: install: /bin/install -c .libs/mini-rsr-bin //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/libexec/mini-rsr-bin libtool: install: /bin/install -c .libs/coot-ligand-validation-bin //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/libexec/coot-ligand-validation-bin libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/simple-restraint.o .libs/make-restraints.o .libs/ng.o .libs/chi-squareds.o .libs/mods.o .libs/distortion.o .libs/chirals.o .libs/flanking.o .libs/gradients.o .libs/extra-restraints.o .libs/pepflip.o .libs/regularize-minimol.o .libs/lograma.o .libs/process-dfs-in-range.o .libs/crankshaft.o .libs/extra-restraints-kk.o .libs/simple-restraint-kk.o .libs/torsion-bonds.o .libs/coot-compare-residues.o .libs/link-restraints.o .libs/parallel-planes.o .libs/pull-restraint.o .libs/trans-peptide.o .libs/model-bond-deltas.o .libs/write-png.o .libs/zo-rama.o .libs/phi-psi.o .libs/neutron.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot-map-heavy -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-map-utils -lcoot-coord-extras -lcoot-coord-utils -lcoot-lidia-core -lcoot-geometry -lcoot-mini-mol -lcoot-utils -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lutil -lsqlite3 -lz -ldl -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lpthread -lccp4c -lmmdb2 -lgsl -lgslcblas -lpng15 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-ideal.so.0 -o .libs/libcoot-ideal.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-ideal.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-ideal.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-ideal.so.0.0.0 libcoot-ideal.so.0 || { rm -f libcoot-ideal.so.0 && ln -s libcoot-ideal.so.0.0.0 libcoot-ideal.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-ideal.so.0.0.0 libcoot-ideal.so || { rm -f libcoot-ideal.so && ln -s libcoot-ideal.so.0.0.0 libcoot-ideal.so; }; }) libtool: install: /bin/install -c .libs/libcoot-ideal.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-ideal.la libtool: install: /bin/install -c .libs/libcoot-ideal.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-ideal.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-ideal.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-ideal.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal' Making install in ligand make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/libexec' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/data' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/data/assign-side-chains' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/ligand' /bin/sh ../libtool --mode=install /bin/install -c libcoot-ligand.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c findwaters findligand coot-identify-protein '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin' /bin/install -c -m 644 ligands-2016.db '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/data' /bin/sh ../libtool --mode=install /bin/install -c findligand-bin findwaters-bin coot-make-ligands-db identify-protein-bin '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/libexec' /bin/install -c -m 644 useable-grid-points-nstep=5,box_radius=5.0-charybdis.data '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/data/assign-side-chains' /bin/install -c -m 644 ligand.hh residue_by_phi_psi.hh wligand.hh monomer-utils.hh chi-angles.hh dunbrack.hh helix-placement.hh fast-ss-search.hh rigid-body.hh ideal-rna.hh rotamer.hh richardson-rotamer.hh torsion-general.hh primitive-chi-angles.hh dipole.hh base-pairing.hh backrub-rotamer.hh trace.hh multi-peptide.hh ligands-db.hh scored-coord.hh ligand-score-card.hh scored-molecule.hh map-point-cluster.hh side-chain-densities.hh tube-finder.hh smith-waterman.hh side-chain.hh new-residue-by-3-phi-psi.hh refine-isolated-chain.hh '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/ligand' /bin/mkdir -p //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/data/assign-side-chains && ${TAR-tar} -x -C //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/data/assign-side-chains -f ../ligand/side-chain-data.tar.gz libtool: install: warning: relinking `libcoot-ligand.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -fopenmp -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DUSE_SQLITE3 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-ligand.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib ligand.lo ligand-extras.lo residue_by_phi_psi.lo wiggly-ligand.lo monomer-utils.lo dunbrack.lo chi-angles-autogen.lo chi-angles.lo helix-placement.lo fast-ss-search.lo rigid-body.lo ideal-rna.lo richardson-rotamers.lo richardson-rotamer.lo rotamer.lo torsion-general.lo rotamer-tables.lo primitive-chi-angles.lo dipole.lo base-pairing.lo backrub-rotamer.lo trace.lo trace-2.lo multi-peptide.lo ligands-db.lo joining-residues.lo ligand-score-card.lo side-chain-densities.lo tube-finder.lo smith-waterman.lo side-chain.lo refine-isolated-chain.lo ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../cootaneer/libcootaneer.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-map-utils.la ../analysis/libcoot-analysis.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lsqlite3 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -lpthread -inst-prefix-dir /) libtool: install: /bin/install -c .libs/findligand-bin //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/libexec/findligand-bin libtool: install: /bin/install -c .libs/findwaters-bin //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/libexec/findwaters-bin libtool: install: /bin/install -c .libs/coot-make-ligands-db //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/libexec/coot-make-ligands-db libtool: install: /bin/install -c .libs/identify-protein-bin //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/libexec/identify-protein-bin libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/ligand.o .libs/ligand-extras.o .libs/residue_by_phi_psi.o .libs/wiggly-ligand.o .libs/monomer-utils.o .libs/dunbrack.o .libs/chi-angles-autogen.o .libs/chi-angles.o .libs/helix-placement.o .libs/fast-ss-search.o .libs/rigid-body.o .libs/ideal-rna.o .libs/richardson-rotamers.o .libs/richardson-rotamer.o .libs/rotamer.o .libs/torsion-general.o .libs/rotamer-tables.o .libs/primitive-chi-angles.o .libs/dipole.o .libs/base-pairing.o .libs/backrub-rotamer.o .libs/trace.o .libs/trace-2.o .libs/multi-peptide.o .libs/ligands-db.o .libs/joining-residues.o .libs/ligand-score-card.o .libs/side-chain-densities.o .libs/tube-finder.o .libs/smith-waterman.o .libs/side-chain.o .libs/refine-isolated-chain.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot-ideal -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-map-heavy -lcootaneer -lcoot-db-main -lccp4mg-utils -lpng15 -lcoot-coord-extras -lcoot-map-utils -lcoot-analysis -lcoot-coord-utils -lcoot-lidia-core -lcoot-geometry -lcoot-mini-mol -lcoot-utils -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lccp4c -lmmdb2 -lsqlite3 -lz -lgsl -lgslcblas -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil -lpthread -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -fopenmp -O3 -Wl,-export-dynamic -fopenmp -Wl,-soname -Wl,libcoot-ligand.so.0 -o .libs/libcoot-ligand.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-ligand.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-ligand.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-ligand.so.0.0.0 libcoot-ligand.so.0 || { rm -f libcoot-ligand.so.0 && ln -s libcoot-ligand.so.0.0.0 libcoot-ligand.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-ligand.so.0.0.0 libcoot-ligand.so || { rm -f libcoot-ligand.so && ln -s libcoot-ligand.so.0.0.0 libcoot-ligand.so; }; }) libtool: install: /bin/install -c .libs/libcoot-ligand.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-ligand.la libtool: install: /bin/install -c .libs/libcoot-ligand.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-ligand.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-ligand.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-ligand.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand' Making install in coords make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coords' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coords' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/coords' /bin/sh ../libtool --mode=install /bin/install -c libcoot-coords.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 Bond_lines.h Cartesian.h cos-sin.h mmdb.h mmdb-extras.h utils.h mmdb-crystal.h Bond_lines_ext.h coot-close.hh phenix-geo.hh ramachandran-container.hh loop-path.hh rotamer-container.hh '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/coords' libtool: install: warning: relinking `libcoot-coords.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coords; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-coords.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib Bond_lines.lo Cartesian.lo cos-sin.lo phenix-geo-bonds.lo mmdb-extras.lo utils.lo mmdb.lo mmdb-crystal.lo Bond_lines_ext.lo coot-close.lo phenix-geo.lo rotamer-markup.lo loop-path.lo ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la ../geometry/libcoot-geometry.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../ligand/libcoot-ligand.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -lpthread -inst-prefix-dir /) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/Bond_lines.o .libs/Cartesian.o .libs/cos-sin.o .libs/phenix-geo-bonds.o .libs/mmdb-extras.o .libs/utils.o .libs/mmdb.o .libs/mmdb-crystal.o .libs/Bond_lines_ext.o .libs/coot-close.o .libs/phenix-geo.o .libs/rotamer-markup.o .libs/loop-path.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-ligand -lcoot-ideal -lcoot-map-heavy -lcootaneer -lcoot-db-main -lccp4mg-utils -lpng15 -lcoot-coord-extras -lcoot-map-utils -lcoot-analysis -lcoot-coord-utils -lcoot-lidia-core -lcoot-geometry -lcoot-mini-mol -lcoot-utils -lsqlite3 -lz -lgsl -lgslcblas -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lccp4c -lmmdb2 -lpthread -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -fopenmp -Wl,-soname -Wl,libcoot-coords.so.0 -o .libs/libcoot-coords.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-coords.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-coords.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-coords.so.0.0.0 libcoot-coords.so.0 || { rm -f libcoot-coords.so.0 && ln -s libcoot-coords.so.0.0.0 libcoot-coords.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-coords.so.0.0.0 libcoot-coords.so || { rm -f libcoot-coords.so && ln -s libcoot-coords.so.0.0.0 libcoot-coords.so; }; }) libtool: install: /bin/install -c .libs/libcoot-coords.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-coords.la libtool: install: /bin/install -c .libs/libcoot-coords.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-coords.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-coords.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-coords.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coords' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coords' Making install in density-contour make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/density-contour' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/density-contour' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/density-contour' /bin/sh ../libtool --mode=install /bin/install -c libcoot-isosurface.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 Vectors.h CIsoSurface.h density-contour-triangles.hh occlusion.hh '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/density-contour' libtool: install: warning: relinking `libcoot-isosurface.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/density-contour; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-isosurface.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib Vectors.lo CIsoSurface.lo density-contour-triangles.lo occlusion.lo ../coords/libcoot-coords.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -inst-prefix-dir /) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/Vectors.o .libs/CIsoSurface.o .libs/density-contour-triangles.o .libs/occlusion.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot-coords -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-ligand -lcoot-ideal -lcoot-map-heavy -lcootaneer -lcoot-db-main -lccp4mg-utils -lpng15 -lcoot-coord-extras -lcoot-map-utils -lcoot-analysis -lcoot-coord-utils -lcoot-lidia-core -lcoot-geometry -lcoot-mini-mol -lcoot-utils -lsqlite3 -lz -lgsl -lgslcblas -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lpthread -lccp4c -lmmdb2 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -fopenmp -Wl,-soname -Wl,libcoot-isosurface.so.0 -o .libs/libcoot-isosurface.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-isosurface.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-isosurface.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-isosurface.so.0.0.0 libcoot-isosurface.so.0 || { rm -f libcoot-isosurface.so.0 && ln -s libcoot-isosurface.so.0.0.0 libcoot-isosurface.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-isosurface.so.0.0.0 libcoot-isosurface.so || { rm -f libcoot-isosurface.so && ln -s libcoot-isosurface.so.0.0.0 libcoot-isosurface.so; }; }) libtool: install: /bin/install -c .libs/libcoot-isosurface.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-isosurface.la libtool: install: /bin/install -c .libs/libcoot-isosurface.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-isosurface.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-isosurface.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-isosurface.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/density-contour' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/density-contour' Making install in skeleton make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/skeleton' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/skeleton' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/skeleton' /bin/sh ../libtool --mode=install /bin/install -c libcoot-skeleton.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 graphical_skel.h dm-utils.h BuildCas.h '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/skeleton' libtool: install: warning: relinking `libcoot-skeleton.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/skeleton; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-skeleton.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib dm-utils.lo graphical_skel.lo BuildCas.lo ../angles/libcoot-AngleInfo.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -inst-prefix-dir /) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/dm-utils.o .libs/graphical_skel.o .libs/BuildCas.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot-AngleInfo -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-coords -lcoot-ligand -lcoot-ideal -lcoot-map-heavy -lcootaneer -lcoot-db-main -lccp4mg-utils -lpng15 -lcoot-coord-extras -lcoot-map-utils -lcoot-analysis -lcoot-coord-utils -lcoot-lidia-core -lcoot-geometry -lcoot-mini-mol -lcoot-utils -lsqlite3 -lz -lgsl -lgslcblas -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lpthread -lccp4c -lmmdb2 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -fopenmp -Wl,-soname -Wl,libcoot-skeleton.so.0 -o .libs/libcoot-skeleton.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-skeleton.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-skeleton.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-skeleton.so.0.0.0 libcoot-skeleton.so.0 || { rm -f libcoot-skeleton.so.0 && ln -s libcoot-skeleton.so.0.0.0 libcoot-skeleton.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-skeleton.so.0.0.0 libcoot-skeleton.so || { rm -f libcoot-skeleton.so && ln -s libcoot-skeleton.so.0.0.0 libcoot-skeleton.so; }; }) libtool: install: /bin/install -c .libs/libcoot-skeleton.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-skeleton.la libtool: install: /bin/install -c .libs/libcoot-skeleton.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-skeleton.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-skeleton.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-skeleton.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/skeleton' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/skeleton' Making install in high-res make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/high-res' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/high-res' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/high-res' /bin/sh ../libtool --mode=install /bin/install -c libcoot-high-res.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 high-res.hh coot-atom-graph.hh coot-node-info.hh sequence-assignment.hh '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/high-res' libtool: install: warning: relinking `libcoot-high-res.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/high-res; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -DHAVE_GSL -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-high-res.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib high-res.lo coot-atom-graph.lo residue-distortions.lo sequence-assignment.lo ../coot-utils/libcoot-coord-utils.la ../coords/libcoot-coords.la ../ligand/libcoot-ligand.la ../coot-utils/libcoot-map-utils.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -inst-prefix-dir /) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/high-res.o .libs/coot-atom-graph.o .libs/residue-distortions.o .libs/sequence-assignment.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-coords -lcoot-ligand -lcoot-ideal -lcoot-map-heavy -lcootaneer -lcoot-db-main -lccp4mg-utils -lpng15 -lcoot-coord-extras -lcoot-analysis -lcoot-map-utils -lcoot-coord-utils -lcoot-lidia-core -lsqlite3 -lz -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -ldl -lutil -lcoot-geometry -lgsl -lgslcblas -lcoot-mini-mol -lcoot-utils -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lpthread -lccp4c -lmmdb2 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -fopenmp -Wl,-soname -Wl,libcoot-high-res.so.0 -o .libs/libcoot-high-res.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-high-res.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-high-res.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-high-res.so.0.0.0 libcoot-high-res.so.0 || { rm -f libcoot-high-res.so.0 && ln -s libcoot-high-res.so.0.0.0 libcoot-high-res.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-high-res.so.0.0.0 libcoot-high-res.so || { rm -f libcoot-high-res.so && ln -s libcoot-high-res.so.0.0.0 libcoot-high-res.so; }; }) libtool: install: /bin/install -c .libs/libcoot-high-res.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-high-res.la libtool: install: /bin/install -c .libs/libcoot-high-res.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-high-res.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-high-res.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-high-res.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/high-res' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/high-res' Making install in build make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/build' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/build' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/build' /bin/sh ../libtool --mode=install /bin/install -c libcoot-cabuild.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 CalphaBuild.hh '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/build' libtool: install: warning: relinking `libcoot-cabuild.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/build; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-cabuild.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib CalphaBuild.lo ../angles/libcoot-AngleInfo.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -inst-prefix-dir /) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/CalphaBuild.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot-AngleInfo -lclipper-ccp4 -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lpthread -lccp4c -lmmdb2 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-cabuild.so.0 -o .libs/libcoot-cabuild.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-cabuild.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-cabuild.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-cabuild.so.0.0.0 libcoot-cabuild.so.0 || { rm -f libcoot-cabuild.so.0 && ln -s libcoot-cabuild.so.0.0.0 libcoot-cabuild.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-cabuild.so.0.0.0 libcoot-cabuild.so || { rm -f libcoot-cabuild.so && ln -s libcoot-cabuild.so.0.0.0 libcoot-cabuild.so; }; }) libtool: install: /bin/install -c .libs/libcoot-cabuild.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-cabuild.la libtool: install: /bin/install -c .libs/libcoot-cabuild.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-cabuild.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-cabuild.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-cabuild.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/build' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/build' Making install in greg-tests make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/greg-tests' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/greg-tests' make[2]: Nothing to be done for `install-exec-am'. make[2]: Nothing to be done for `install-data-am'. make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/greg-tests' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/greg-tests' Making install in python-tests make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/python-tests' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/python-tests' make[2]: Nothing to be done for `install-exec-am'. make[2]: Nothing to be done for `install-data-am'. make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/python-tests' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/python-tests' Making install in tw make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/tw' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/tw' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/tw' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/sh ../libtool --mode=install /bin/install -c libcoot-tw.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 coot-tw.hh '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/tw' libtool: install: /bin/install -c .libs/libcoot-tw.so.0.0.0 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-tw.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-tw.so.0.0.0 libcoot-tw.so.0 || { rm -f libcoot-tw.so.0 && ln -s libcoot-tw.so.0.0.0 libcoot-tw.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-tw.so.0.0.0 libcoot-tw.so || { rm -f libcoot-tw.so && ln -s libcoot-tw.so.0.0.0 libcoot-tw.so; }; }) libtool: install: /bin/install -c .libs/libcoot-tw.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-tw.la libtool: install: /bin/install -c .libs/libcoot-tw.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-tw.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-tw.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-tw.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/tw' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/tw' Making install in lbg make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lbg' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lbg' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/pixmaps' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/lidia' /bin/sh ../libtool --mode=install /bin/install -c libcoot-lidia.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/lbg' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot' /bin/install -c -m 644 3-c-new.svg 6-c-shadow-experiment.svg single.svg 3-c-other.svg 6-c.svg sp3.svg 3-c.svg 7-c.svg stereo-out.svg 4-c.svg 8-c.svg TheStructorr_magnifying_glass-32.svg 5-c.svg Anonymous_Architetto_--_Chiave.svg TheStructorr_magnifying_glass.svg 6-c-arom.svg charge.svg triple.svg 6-c-exp-2.svg double.svg Trash-hydrogens-Andy_Trash_Can.svg face-smile.svg 05_Hotel_Icon_Hair_Salon.svg '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/pixmaps' /bin/install -c -m 644 lbg.hh w-atom.hh w-bond.hh wmolecule.hh topological-equivalence.hh graphics-c-interface-functions.hh lbg-drag-and-drop.hh qed-interface.hh alerts.hh solvent-exposure-difference.hh '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/lbg' /bin/install -c -m 644 lbg.glade lbg-callbacks.cc '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot' /bin/install -c -m 644 __init__.py fetch.py '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/lidia' libtool: install: warning: relinking `libcoot-lidia.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lbg; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-lidia.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib lbg.lo lbg-flev.lo wmolecule.lo lbg-search.lo residue-circles.lo lbg-drag-and-drop.lo qed-interface.lo alerts.lo alerts-list.lo qed-properties.lo ../utils/libcoot-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la ../coot-utils/libcoot-coord-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgsl -lgslcblas -lm -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgoocanvas -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lcairo -lpango-1.0 -lfontconfig -lgobject-2.0 -lglib-2.0 -lfreetype -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -inst-prefix-dir /) Byte-compiling python modules... __init__.pyfetch.py Byte-compiling python modules (optimized versions) ... __init__.pyfetch.py libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/lbg.o .libs/lbg-flev.o .libs/wmolecule.o .libs/lbg-search.o .libs/residue-circles.o .libs/lbg-drag-and-drop.o .libs/qed-interface.o .libs/alerts.o .libs/alerts-list.o .libs/qed-properties.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-coord-utils -lcoot-lidia-core -lsqlite3 -lz -lcoot-geometry -lcoot-mini-mol -lcoot-utils -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lccp4c -lmmdb2 -lgsl -lgslcblas -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lgoocanvas -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lcairo -lpango-1.0 -lfontconfig -lgobject-2.0 -lglib-2.0 -lfreetype -lpython2.7 -lpthread -ldl -lutil -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-export-dynamic -Wl,-export-dynamic -Wl,-soname -Wl,libcoot-lidia.so.0 -o .libs/libcoot-lidia.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-lidia.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-lidia.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-lidia.so.0.0.0 libcoot-lidia.so.0 || { rm -f libcoot-lidia.so.0 && ln -s libcoot-lidia.so.0.0.0 libcoot-lidia.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-lidia.so.0.0.0 libcoot-lidia.so || { rm -f libcoot-lidia.so && ln -s libcoot-lidia.so.0.0.0 libcoot-lidia.so; }; }) libtool: install: /bin/install -c .libs/libcoot-lidia.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-lidia.la libtool: install: /bin/install -c .libs/libcoot-lidia.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-lidia.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-lidia.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-lidia.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin' /bin/sh ../libtool --mode=install /bin/install -c lidia '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin' libtool: install: /bin/install -c .libs/lidia //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin/lidia make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lbg' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lbg' Making install in cootilus make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootilus' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootilus' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot' /bin/sh ../libtool --mode=install /bin/install -c libcootilus.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 nautilus_lib.pdb '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot' libtool: install: /bin/install -c .libs/libcootilus.so.0.0.0 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcootilus.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcootilus.so.0.0.0 libcootilus.so.0 || { rm -f libcootilus.so.0 && ln -s libcootilus.so.0.0.0 libcootilus.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcootilus.so.0.0.0 libcootilus.so || { rm -f libcootilus.so && ln -s libcootilus.so.0.0.0 libcootilus.so; }; }) libtool: install: /bin/install -c .libs/libcootilus.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcootilus.la libtool: install: /bin/install -c .libs/libcootilus.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcootilus.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcootilus.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcootilus.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootilus' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootilus' Making install in goograph make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/goograph' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/goograph' make[2]: Nothing to be done for `install-data-am'. /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/sh ../libtool --mode=install /bin/install -c libcoot-goograph.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' libtool: install: warning: relinking `libcoot-goograph.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/goograph; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-goograph.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib goograph.lo ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lgoocanvas -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lcairo -lpango-1.0 -lfontconfig -lgobject-2.0 -lglib-2.0 -lfreetype -inst-prefix-dir /) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/goograph.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot-lidia-core -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-geometry -lcoot-mini-mol -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lccp4c -lmmdb2 -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lutil -lsqlite3 -lz -ldl -lpthread -lcoot-utils -lgoocanvas -lgtk-x11-2.0 -lgdk-x11-2.0 -latk-1.0 -lgio-2.0 -lpangoft2-1.0 -lpangocairo-1.0 -lgdk_pixbuf-2.0 -lcairo -lpango-1.0 -lfontconfig -lgobject-2.0 -lglib-2.0 -lfreetype -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-soname -Wl,libcoot-goograph.so.0 -o .libs/libcoot-goograph.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-goograph.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-goograph.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-goograph.so.0.0.0 libcoot-goograph.so.0 || { rm -f libcoot-goograph.so.0 && ln -s libcoot-goograph.so.0.0.0 libcoot-goograph.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-goograph.so.0.0.0 libcoot-goograph.so || { rm -f libcoot-goograph.so && ln -s libcoot-goograph.so.0.0.0 libcoot-goograph.so; }; }) libtool: install: /bin/install -c .libs/libcoot-goograph.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-goograph.la libtool: install: /bin/install -c .libs/libcoot-goograph.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-goograph.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-goograph.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-goograph.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/goograph' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/goograph' Making install in pli make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pli' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pli' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/pli' /bin/sh ../libtool --mode=install /bin/install -c libcoot-pli.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/install -c -m 644 flev-annotations.hh protein-ligand-interactions.hh pi-stacking.hh specs.hh '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot/pli' libtool: install: warning: relinking `libcoot-pli.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pli; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot-pli.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib protein-ligand-interactions.lo flev-annotations.lo pi-stacking.lo specs.lo ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../lidia-core/libcoot-lidia-core.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -inst-prefix-dir /) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/protein-ligand-interactions.o .libs/flev-annotations.o .libs/pi-stacking.o .libs/specs.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot-coord-utils -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lgsl -lgslcblas -lcoot-lidia-core -lcoot-geometry -lcoot-mini-mol -lcoot-utils -lsqlite3 -lz -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lccp4c -lmmdb2 -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-export-dynamic -Wl,-export-dynamic -Wl,-soname -Wl,libcoot-pli.so.0 -o .libs/libcoot-pli.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot-pli.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-pli.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-pli.so.0.0.0 libcoot-pli.so.0 || { rm -f libcoot-pli.so.0 && ln -s libcoot-pli.so.0.0.0 libcoot-pli.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot-pli.so.0.0.0 libcoot-pli.so || { rm -f libcoot-pli.so && ln -s libcoot-pli.so.0.0.0 libcoot-pli.so; }; }) libtool: install: /bin/install -c .libs/libcoot-pli.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-pli.la libtool: install: /bin/install -c .libs/libcoot-pli.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-pli.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-pli.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot-pli.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pli' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pli' Making install in fonts make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/fonts' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/fonts' make[2]: Nothing to be done for `install-exec-am'. /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/fonts' /bin/install -c -m 644 COPYRIGHT.TXT README.TXT RELEASENOTES.TXT Vera.ttf VeraMono.ttf '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/fonts' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/fonts' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/fonts' Making install in pyrogen make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pyrogen' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pyrogen' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin' /bin/install -c pyrogen '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/sh ../libtool --mode=install /bin/install -c libcoot_py_restraints.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot' /bin/sh ../libtool --mode=install /bin/install -c _pyrogen_swig.la pyrogen_boost.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages' libtool: install: warning: relinking `libcoot_py_restraints.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pyrogen; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -o libcoot_py_restraints.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib mmff-restraints.lo py-restraints.lo cairo-molecule.lo ../geometry/libcoot-geometry.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -lcairo -inst-prefix-dir /) /bin/install -c -m 644 pyrogen.py atom_types.py jay_util.py tautomer.py pyrogen_swig.py coot_git.py '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot' libtool: install: warning: relinking `_pyrogen_swig.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pyrogen; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -module -o _pyrogen_swig.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages pyrogen-swig.lo restraints.lo libcoot_py_restraints.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../analysis/libcoot-analysis.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -lcairo -inst-prefix-dir /) Byte-compiling python modules... pyrogen.pyatom_types.pyjay_util.pytautomer.pypyrogen_swig.pycoot_git.py Byte-compiling python modules (optimized versions) ... pyrogen.pyatom_types.pyjay_util.pytautomer.pypyrogen_swig.pycoot_git.py libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/mmff-restraints.o .libs/py-restraints.o .libs/cairo-molecule.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-lidia-core -lcoot-geometry -lcoot-mini-mol -lsqlite3 -lz -lcoot-utils -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lccp4c -lmmdb2 -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lcairo -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-export-dynamic -Wl,-export-dynamic -Wl,-soname -Wl,libcoot_py_restraints.so.0 -o .libs/libcoot_py_restraints.so.0.0.0 libtool: install: /bin/install -c .libs/libcoot_py_restraints.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot_py_restraints.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot_py_restraints.so.0.0.0 libcoot_py_restraints.so.0 || { rm -f libcoot_py_restraints.so.0 && ln -s libcoot_py_restraints.so.0.0.0 libcoot_py_restraints.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib && { ln -s -f libcoot_py_restraints.so.0.0.0 libcoot_py_restraints.so || { rm -f libcoot_py_restraints.so && ln -s libcoot_py_restraints.so.0.0.0 libcoot_py_restraints.so; }; }) libtool: install: /bin/install -c .libs/libcoot_py_restraints.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot_py_restraints.la libtool: install: /bin/install -c .libs/libcoot_py_restraints.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot_py_restraints.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot_py_restraints.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/libcoot_py_restraints.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib' libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/pyrogen-swig.o .libs/restraints.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot_py_restraints -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-ideal -lcoot-map-heavy -lcoot-map-utils -lcoot-coord-extras -lpng15 -lcoot-analysis -lcoot-coord-utils -lcoot-lidia-core -lsqlite3 -lz -lgsl -lgslcblas -lcoot-geometry -lcoot-mini-mol -lcoot-utils -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lccp4c -lmmdb2 -lpython2.7 -lpthread -ldl -lutil -lcairo -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-export-dynamic -Wl,-export-dynamic -Wl,-soname -Wl,_pyrogen_swig.so.0 -o .libs/_pyrogen_swig.so.0.0.0 libtool: install: /bin/install -c .libs/_pyrogen_swig.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/_pyrogen_swig.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages && { ln -s -f _pyrogen_swig.so.0.0.0 _pyrogen_swig.so.0 || { rm -f _pyrogen_swig.so.0 && ln -s _pyrogen_swig.so.0.0.0 _pyrogen_swig.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages && { ln -s -f _pyrogen_swig.so.0.0.0 _pyrogen_swig.so || { rm -f _pyrogen_swig.so && ln -s _pyrogen_swig.so.0.0.0 _pyrogen_swig.so; }; }) libtool: install: /bin/install -c .libs/_pyrogen_swig.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/_pyrogen_swig.la libtool: install: warning: relinking `pyrogen_boost.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pyrogen; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/freetype2 -I/usr/include/libpng15 -I/usr/include/uuid -I/usr/include/libdrm -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -module -o pyrogen_boost.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages restraints-boost.lo libcoot_py_restraints.la ../pli/libcoot-pli.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../lidia-core/libcoot-lidia-core.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -inst-prefix-dir /) libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/restraints-boost.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ideal/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ligand/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/cootaneer/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/db-main/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/ccp4mg-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/analysis/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot_py_restraints -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcairo -lcoot-pli -lcoot-coords -lcoot-ligand -lcoot-ideal -lcoot-map-heavy -lcootaneer -lcoot-db-main -lccp4mg-utils -lpng15 -lcoot-coord-extras -lcoot-map-utils -lcoot-analysis -lcoot-coord-utils -lgsl -lgslcblas -lcoot-lidia-core -lcoot-geometry -lcoot-mini-mol -lcoot-utils -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lccp4c -lsqlite3 -lz -lmmdb2 -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -O3 -Wl,-export-dynamic -fopenmp -Wl,-soname -Wl,pyrogen_boost.so.0 -o .libs/pyrogen_boost.so.0.0.0 libtool: install: /bin/install -c .libs/pyrogen_boost.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/pyrogen_boost.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages && { ln -s -f pyrogen_boost.so.0.0.0 pyrogen_boost.so.0 || { rm -f pyrogen_boost.so.0 && ln -s pyrogen_boost.so.0.0.0 pyrogen_boost.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages && { ln -s -f pyrogen_boost.so.0.0.0 pyrogen_boost.so || { rm -f pyrogen_boost.so && ln -s pyrogen_boost.so.0.0.0 pyrogen_boost.so; }; }) libtool: install: /bin/install -c .libs/pyrogen_boost.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/pyrogen_boost.la libtool: install: /bin/install -c .libs/_pyrogen_swig.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/_pyrogen_swig.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/_pyrogen_swig.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/_pyrogen_swig.a libtool: install: /bin/install -c .libs/pyrogen_boost.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/pyrogen_boost.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/pyrogen_boost.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/pyrogen_boost.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages' make install-exec-hook make[3]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pyrogen' make[3]: Nothing to be done for `install-exec-hook'. make[3]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pyrogen' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pyrogen' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pyrogen' Making install in src make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/src' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/src' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin' /bin/sh ../libtool --mode=install /bin/install -c coot-fix-nomenclature-errors '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin' /bin/install -c coot coot-density-score-by-residue dynarama '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin' libtool: install: /bin/install -c .libs/coot-fix-nomenclature-errors //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/bin/coot-fix-nomenclature-errors /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/libexec' /bin/sh ../libtool --mode=install /bin/install -c coot-bin coot-density-score-by-residue-bin dynarama-bin '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/libexec' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot' /bin/sh ../libtool --mode=install /bin/install -c coot_embedded.la coot_extended.la '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages' /bin/install -c coot.py coot.pth '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages' /bin/install -c -m 644 dynarama.glade '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot' /bin/install -c -m 644 crunch-model.hh '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/coot' /bin/install -c -m 644 coot.py coot.pth '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages' libtool: install: warning: relinking `coot_embedded.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/src; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DPACKAGE_LOCALE_DIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale\" -DPKGPYTHONDIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-scientific-linux-7.9-python-gtk2\" "-DCOOT_BUILD_INFO_STRING=\"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -module --no-undefined -o coot_embedded.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages coot-embedded.lo ../lidia-core/libcoot-lidia-core.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -inst-prefix-dir /) Byte-compiling python modules... coot.py libtool: install: /bin/install -c .libs/coot-bin //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/libexec/coot-bin Byte-compiling python modules (optimized versions) ... coot.py libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/coot-embedded.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot-lidia-core -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-geometry -lcoot-mini-mol -lcoot-utils -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lccp4c -lsqlite3 -lz -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lmmdb2 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -pthread -fopenmp -O3 -Wl,-export-dynamic -Wl,-export-dynamic -pthread -fopenmp -Wl,-soname -Wl,coot_embedded.so.0 -o .libs/coot_embedded.so.0.0.0 libtool: install: /bin/install -c .libs/coot_embedded.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot_embedded.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages && { ln -s -f coot_embedded.so.0.0.0 coot_embedded.so.0 || { rm -f coot_embedded.so.0 && ln -s coot_embedded.so.0.0.0 coot_embedded.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages && { ln -s -f coot_embedded.so.0.0.0 coot_embedded.so || { rm -f coot_embedded.so && ln -s coot_embedded.so.0.0.0 coot_embedded.so; }; }) libtool: install: /bin/install -c .libs/coot_embedded.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot_embedded.la libtool: install: warning: relinking `coot_extended.la' libtool: install: (cd /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/src; /bin/sh /netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/libtool --tag CXX --mode=relink g++ -std=gnu++11 -DPKGDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot\" -DPACKAGE_LOCALE_DIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/locale\" -DPKGPYTHONDIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot\" -DDATADIR=\"/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share\" -DCOOT_SYS_BUILD_TYPE=\"Linux-x86_64-scientific-linux-7.9-python-gtk2\" "-DCOOT_BUILD_INFO_STRING=\"built by: Paul Emsley PI Garib Murshudov added 28092012 build-host: hal.lmb.internal on: Tue 27 Jul 0414.25 BST 2021\"" -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include -P -pthread -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYTHON -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -I/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -fopenmp -g -O3 -ffast-math -Wall -Wno-unused -std=c++11 -module --no-undefined -o coot_extended.la -rpath /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages coot-extended.lo ../pli/libcoot-pli.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitSubgraphs -lRDKitPartialCharges -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lpython2.7 -lpthread -ldl -lutil -lm -Xlinker -export-dynamic -lutil -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lmmdb2 -inst-prefix-dir /) libtool: install: /bin/install -c .libs/coot-density-score-by-residue-bin //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/libexec/coot-density-score-by-residue-bin libtool: install: /bin/install -c .libs/dynarama-bin //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/libexec/dynarama-bin libtool: relink: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crti.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtbeginS.o .libs/coot-extended.o -Wl,-rpath -Wl,/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/coot-utils/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/lidia-core/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/geometry/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/mini-mol/.libs -L/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/utils/.libs -L//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib -lcoot-pli -L=/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib:-L/lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib: -lcoot-coord-utils -lgsl -lgslcblas -lcoot-lidia-core -lsqlite3 -lz -lcoot-geometry -lcoot-mini-mol -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lrfftw -lfftw -lccp4c -lcoot-utils -lRDKitMolDraw2D -lRDKitForceFieldHelpers -lRDKitDescriptors -lRDKitForceField -lRDKitSubstructMatch -lRDKitcoordgenlib -lRDKitOptimizer -lRDKitDistGeomHelpers -lRDKitDistGeometry -lRDKitChemReactions -lRDKitAlignment -lRDKitEigenSolvers -lRDKitDepictor -lRDKitMolChemicalFeatures -lRDKitmaeparser -lRDKitFileParsers -lRDKitRDGeometryLib -lRDKitGraphMol -lRDKitShapeHelpers -lRDKitFingerprints -lRDKitMolAlign -lRDKitMolTransforms -lRDKitChemTransforms -lRDKitSmilesParse -lRDKitFilterCatalog -lRDKitCatalogs -lRDKitSubgraphs -lRDKitDataStructs -lRDKitPartialCharges -lRDKitRDGeneral -lboost_serialization -lboost_python27 -lpython2.7 -lpthread -ldl -lutil -lmmdb2 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtfastmath.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/crtendS.o /usr/lib/gcc/x86_64-redhat-linux/4.8.5/../../../../lib64/crtn.o -pthread -fopenmp -O3 -Wl,-export-dynamic -Wl,-export-dynamic -pthread -fopenmp -Wl,-soname -Wl,coot_extended.so.0 -o .libs/coot_extended.so.0.0.0 libtool: install: /bin/install -c .libs/coot_extended.so.0.0.0T //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot_extended.so.0.0.0 libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages && { ln -s -f coot_extended.so.0.0.0 coot_extended.so.0 || { rm -f coot_extended.so.0 && ln -s coot_extended.so.0.0.0 coot_extended.so.0; }; }) libtool: install: (cd //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages && { ln -s -f coot_extended.so.0.0.0 coot_extended.so || { rm -f coot_extended.so && ln -s coot_extended.so.0.0.0 coot_extended.so; }; }) libtool: install: /bin/install -c .libs/coot_extended.lai //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot_extended.la libtool: install: /bin/install -c .libs/coot_embedded.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot_embedded.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot_embedded.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot_embedded.a libtool: install: /bin/install -c .libs/coot_extended.a //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot_extended.a libtool: install: chmod 644 //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot_extended.a libtool: install: ranlib //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot_extended.a libtool: install: warning: remember to run `libtool --finish /lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/src' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/src' Making install in data make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data' Making install in rama-coeffs make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/rama-coeffs' make[3]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/rama-coeffs' make[3]: Nothing to be done for `install-exec-am'. /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/data/rama/zo-tables' /bin/install -c -m 644 all-non-pre-pro.tab coeffsolution.dat '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/data/rama/zo-tables' make[3]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/rama-coeffs' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/rama-coeffs' Making install in cho-models make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/cho-models' make[3]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/cho-models' make[3]: Nothing to be done for `install-exec-am'. /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/data/cho-models' /bin/install -c -m 644 model-level-1-NAG-NAG-ASN-ASN.tab model-level-4-BMA-BETA1-6-BMA.tab model-level-5-MAN-ALPHA1-3-BMA.tab model-level-2-FUC-BETA1-3-NAG.tab model-level-4-BMA-BETA1-6-MAN.tab model-level-5-MAN-ALPHA1-3-MAN.tab model-level-2-FUC-BETA1-6-NAG.tab model-level-4-MAN-ALPHA1-3-BMA.tab model-level-5-MAN-ALPHA1-6-BMA.tab model-level-2-FUL-ALPHA1-3-NAG.tab model-level-4-MAN-ALPHA1-4-BMA.tab model-level-5-MAN-ALPHA1-6-MAN.tab model-level-2-FUL-ALPHA1-6-NAG.tab model-level-4-MAN-ALPHA1-6-BMA.tab model-level-5-NAG-BETA1-2-MAN.tab model-level-2-NAG-BETA1-4-NAG.tab model-level-4-MAN-ALPHA1-6-MAN.tab model-level-6-GAL-BETA1-4-NAG.tab model-level-3-BMA-BETA1-3-NAG.tab model-level-4-NAG-BETA1-4-BMA.tab model-level-6-MAN-ALPHA1-2-MAN.tab model-level-3-BMA-BETA1-4-NAG.tab model-level-5-BMA-BETA1-2-BMA.tab model-level-7-GLC-ALPHA1-3-MAN.tab model-level-3-MAN-ALPHA1-4-NAG.tab model-level-5-BMA-BETA1-6-MAN.tab model-level-4-BMA-BETA1-3-BMA.tab model-level-5-MAN-ALPHA1-2-MAN.tab '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/data/cho-models' make[3]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/cho-models' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/cho-models' Making install in cho-acedrg make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/cho-acedrg' make[3]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/cho-acedrg' make[3]: Nothing to be done for `install-exec-am'. /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/data/cho-acedrg' /bin/install -c -m 644 BMA-acedrg.cif FUC-acedrg.cif MAN-acedrg.cif NAG-acedrg.cif SIA-acedrg.cif XYP-acedrg.cif '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/data/cho-acedrg' make[3]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/cho-acedrg' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/cho-acedrg' Making install in metal make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/metal' make[3]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/metal' make[3]: Nothing to be done for `install-exec-am'. /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/data/metal' /bin/install -c -m 644 metal-O-distance.table metal-S-distance.table metal-N-distance.table '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/data/metal' make[3]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/metal' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data/metal' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data' make[3]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data' make[3]: Nothing to be done for `install-exec-am'. /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/data' /bin/install -c -m 644 tutorial-modern.pdb rnasa-1.8-all_refmac1.mtz ligands.db '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/data' make[3]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/data' Making install in man make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/man' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/man' make[2]: Nothing to be done for `install-exec-am'. /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/man/man1' /bin/install -c -m 644 'coot.man' '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/man/man1/coot.1' /bin/install -c -m 644 'coot-density-score-by-residue.man' '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/man/man1/coot-density-score-by-residue.1' /bin/install -c -m 644 'coot-compare-dictionaries.man' '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/man/man1/coot-compare-dictionaries.1' /bin/install -c -m 644 'coot-available-comp-id.man' '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/man/man1/coot-available-comp-id.1' /bin/install -c -m 644 'coot-bfactan.man' '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/man/man1/coot-bfactan.1' /bin/install -c -m 644 'coot-fix-nomenclature-errors.man' '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/man/man1/coot-fix-nomenclature-errors.1' /bin/install -c -m 644 'coot-make-shelx-restraints.man' '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/man/man1/coot-make-shelx-restraints.1' /bin/install -c -m 644 'coot-mini-rsr.man' '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/man/man1/coot-mini-rsr.1' /bin/install -c -m 644 'lidia.man' '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/man/man1/lidia.1' /bin/install -c -m 644 'findwaters.man' '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/man/man1/findwaters.1' /bin/install -c -m 644 'findligand.man' '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/man/man1/findligand.1' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/man' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/man' Making install in rama-data make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/rama-data' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/rama-data' make[2]: Nothing to be done for `install-exec-am'. /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/rama-data' /bin/install -c -m 644 rota500-arg.data rota500-asn.data rota500-asp.data rota500-cys.data rota500-gln.data rota500-glu.data rota500-his.data rota500-ile.data rota500-leu.data rota500-lys.data rota500-met.data rota500-phetyr.data rota500-pro.data rota500-ser.data rota500-thr.data rota500-trp.data rota500-val.data '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/rama-data' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/rama-data' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/rama-data' Making install in doc make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/doc' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/doc' make[2]: Nothing to be done for `install-exec-am'. make[2]: Nothing to be done for `install-data-am'. make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/doc' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/doc' Making install in rcrane make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/rcrane' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/rcrane' make[2]: Nothing to be done for `install-exec-am'. /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot/rcrane' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot/rcrane/data' /bin/install -c -m 644 data/bases.pdb data/phosAngleSmoothed.csv data/sugarDists.csv data/c2p.pdb data/phosDistSmoothed.csv data/sugarPhosSugarAngleSmoothed.csv data/c3p.pdb data/pseudoChiSmoothed.csv data/thetaEtaClusts.csv data/dihedData.csv data/smoothedPuckerDist.csv data/endingPDists.csv data/startingPDists.csv '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot/rcrane/data' /bin/install -c -m 644 CHANGELOG.txt buildPhosOxy.py installRCrane.py pseudoMolecule.py selectMapDialog.py LICENSE.txt calcCoords.py launch.py pseudoPredictor.py settings.py chain.py linearInterp.py puckerList.py smoothProb.py NOTICE.txt citationPopup.py logo.svg reviewSuitesGui.py stats.py README.txt coot_gui_adapter.py menu.py revisionNum.py strucCalc.py __init__.py coot_utils_adapter.py nextPhos.py rotData.py suite.py about.py nucleotide.py rotamerSeq.py thetaEtaPredictor.py bondLength.py guiUtils.py phenixRestraints.py rotamerize.py traceGui.py buildInitSugar.py icon.svg '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot/rcrane' /bin/install -c -m 644 preLaunchCheck.py safelog.py extendChain.py reportInputErrors.py '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/lib/python2.7/site-packages/coot/rcrane' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/rcrane' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/rcrane' Making install in pixmaps make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pixmaps' Making install in icons make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pixmaps/icons' make[3]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pixmaps/icons' make[3]: Nothing to be done for `install-exec-am'. for icon in hicolor_apps_48x48_coot.png hicolor_apps_64x64_coot.png hicolor_apps_96x96_coot.png hicolor_apps_256x256_coot.png hicolor_apps_scalable_coot.svg; do \ THEME=` echo $icon | cut -d_ -f1`; \ CONTEXT=` echo $icon | cut -d_ -f2`; \ SIZE=` echo $icon | cut -d_ -f3`; \ ICONFILE=`echo $icon | cut -d_ -f4`; \ mkdir -p //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/icons/$THEME/$SIZE/$CONTEXT; \ /bin/install -c -m 644 ./$icon //lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/icons/$THEME/$SIZE/$CONTEXT/$ICONFILE; \ done; make[3]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pixmaps/icons' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pixmaps/icons' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pixmaps' make[3]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pixmaps' make[3]: Nothing to be done for `install-exec-am'. /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/pixmaps' /bin/install -c -m 644 coot-0.9.6.png add-alt-conf.png dna.svg probe-clash.svg add-alt-conf.svg edit-backbone.svg radacina_handcuffs-small.svg add-peptide-1.png edit-chi.png ramachandran.png add-peptide-1.svg edit-chi.svg refine-1.svg add-water.svg emsley.jpg refine.png anchor.svg env-distances.png regularize-1.svg aniso-atom.png env-distances.svg regularize.png aniso-atom.svg eugene.jpg renumber-residues.svg appointment-new.png flip-peptide.png reset-view-32.png atom-at-pointer.png flip-peptide.svg reset-view-32.svg atom-at-pointer.svg generic-display-objects.svg reset-view.png auto-fit-rotamer.png geom.svg reset-view.svg auto-fit-rotamer.svg ghosts.png residue-info.png '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/pixmaps' /bin/install -c -m 644 azerbaijan2.svg ghosts.svg residue-info.svg azerbaijan.svg gln-asn-b-factors.svg rigid-body.png calculate-ghosts.svg gln-asn-b-factorssvg.svg rigid-body.svg cell+symm.png glyco-structures.svg rotamers.png cell+symm.svg gnome-run.png rotamers.svg change-chain-id.svg go-to-atom.svg rtz.png rrz.png chiral.png go-to-ligand.svg rtz.svg rrz.svg chiral.svg gtk-connect-16.png scroll-wheel.svg connect-to-ccp4.svg gtk-font.png secondary-structure.svg connect-to-oca.svg gtk-open-16.png sequence-view.png connect-to-usf.svg gtk-open-24.png sequence-view.svg connect-to-world.svg gtk-open.png side-chain-180.png kevin.jpg side-chain-180.svg '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/pixmaps' /bin/install -c -m 644 kevin-orig.jpg smiles.png kleywegt.svg smiles.svg map.svg spin-view.png coot-favicon.png merge-molecules.svg spin-view.svg coot-icon.png mutate-auto-fit.svg stereo-view.svg coot-save.png mutate.svg stop.svg coot-save-symm.png panel-screenshot.png temperature.png crosshairs.png peptide-omega.png temperature.svg crosshairs.svg peptide-omega.svg torsion-general.svg delete.png phenixed.svg undo-1.png delete.svg pink-pointer.png undo-1.svg density-fit.svg pink-pointer.svg unknown-blob.png diff-map.png plane-distances.png unknown-blob.svg diff-map.svg plane-distances.svg water-diff-map.svg display-manager.png '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/pixmaps' /bin/install -c -m 644 pointer-distances.png water-drop.svg display-manager.svg pointer-distances.svg koppi-green-tick-64.png rygle-red-cross-64.png forest51690-dwcheckno-incomplete-64.png go-to-ligand.png go-to-atom.png azerbaijan.png add-water.png mutate.png mutate-auto-fit.png edit-backbone.png torsion-general.png anchor.png regularize-1.png refine-1.png stock-zoom-follow-window-12.svg stock-zoom-follow-window-12.png rama_all.png rama_gly.png rama_pro.png rama_non_gly_pro.png curlew-long.png curlew-128-filled.svg rama2_all.png rama2_gly.png rama2_pro.png rama2_non_gly_pro.png rama2_ileval.png rama2_pre_pro.png rama2_non_gly_pro_pre_pro_ileval.png '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot/pixmaps' make[3]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pixmaps' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pixmaps' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre/pixmaps' make[1]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre' make[2]: Entering directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre' make[2]: Nothing to be done for `install-exec-am'. /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/appdata' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/applications' /bin/mkdir -p '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot' /bin/install -c -m 644 coot.appdata.xml '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/appdata' /bin/install -c -m 644 coot.desktop '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/applications' /bin/install -c -m 644 cootrc standard-residues.pdb colours.def mtrix-to-ncs-matrix.awk syminfo.lib '//lmb/home/pemsley/autobuild/Linux-hal.lmb.internal-pre-release-gtk2-python/share/coot' make[2]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre' make[1]: Leaving directory `/net/nfs1/netscr/pemsley/autobuild/hal.lmb.internal_2021-07-27__T03_14_14/coot-0.9.6.1-pre'