build-it: line 3412: finger: command not found From tar file: /home/paule/autobuild/building/sources/coot-0.8.2.tar.gz building in: /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2 CFLAGS: CXXFLAGS: -g -O CPPFLAGS: LDFLAGS: ./configure --prefix=/home/paule/autobuild/Linux-ubuntu1404-gtk2-python --with-fftw-prefix=/home/paule/autobuild/Linux-ubuntu1404-gtk2-python --with-goocanvas-prefix=/home/paule/autobuild/Linux-ubuntu1404-gtk2-python --with-glut-prefix=/home/paule/autobuild/Linux-ubuntu1404-gtk2-python --with-guile --with-guile-gtk --with-guile-gtk-prefix=/home/paule/autobuild/Linux-ubuntu1404-gtk2-python --with-python --with-pygtk --disable-shared checking for a BSD-compatible install... /usr/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 for style of include used by make... GNU checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... 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 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 for a sed that does not truncate output... /bin/sed checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking whether the shell understands some XSI constructs... yes checking whether the shell understands "+="... yes checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for ar... ar checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok 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 whether we are using the GNU C++ compiler... (cached) yes checking whether g++ accepts -g... (cached) yes checking dependency style of g++... (cached) gcc3 checking how to run the C++ preprocessor... g++ -E 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... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes 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... no checking whether to build static libraries... yes checking for ld used by g++... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the g++ linker (/usr/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... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... 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 for pkg-config... /usr/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 SQLite3... yes checking for mmdb2... yes checking for ssm... yes no checking for prefixed single-precision FFTW2 (sfftw.h)... no checking for non-prefixed single-precision FFTW2 (fftw.h)... yes checking for Clipper... yes Congratulations, you are using Guile checking for guile... /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin/guile checking for guile-config... /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin/guile-config checking for guile-tools... /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin/guile-tools checking libguile compile flags... -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread checking libguile link flags... -P -pthread -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lguile -lltdl -L/home/paule/autobuild/Linux-ubuntu1404-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... /home/paule/autobuild/Linux-ubuntu1404-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... /usr/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... 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... /home/paule/autobuild/Linux-ubuntu1404-gtk2-python checking for boostlib >= 1.20.0... configure: We could not detect the boost libraries (version 1.20 or higher). If you have a staged boost library (still not installed) please specify $BOOST_ROOT in your environment and do not give a PATH to --with-boost option. If you are sure you have boost installed, then check your version number looking in . See http://randspringer.de/boost for more documentation. checking for python2.7... /home/paule/autobuild/Linux-ubuntu1404-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/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 checking for Python library path... -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lpython2.7 checking for Python site-packages path... /home/paule/autobuild/Linux-ubuntu1404-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... no checking libglade... no checking for Goocanvas... yes Not using MySQL database checking for curl >= 7.9.7... bc: symbol lookup error: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libreadline.so.6: undefined symbol: UP 7.32.0 checking build type... Linux-x86_64-ubuntu-14.04-python-gtk2 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 surface/Makefile config.status: creating coot-surface/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 libgtkgraph/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 pixmaps/Makefile config.status: creating pixmaps/icons/Makefile config.status: creating rama-data/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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil' Making all in catcheck make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/catcheck' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/catcheck' Making all in rama make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/rama' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/rama' Making all in sec-str make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/sec-str' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/sec-str' Making all in strand-analysis make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/strand-analysis' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/strand-analysis' Making all in vectors make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/vectors' make[2]: Nothing to be done for `all'. make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/vectors' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil' make[2]: Nothing to be done for `all-am'. make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil' Making all in scheme make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/scheme' make[1]: Nothing to be done for `all'. make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/scheme' Making all in python make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/python' make[1]: Nothing to be done for `all'. make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/python' Making all in pdb-templates make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pdb-templates' make[1]: Nothing to be done for `all'. make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pdb-templates' Making all in macros make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/macros' make[1]: Nothing to be done for `all'. make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/macros' Making all in compat make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/compat' /bin/bash ../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O2 -Wall -Wunused -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c -o getopt.lo getopt.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O2 -Wall -Wunused -MT getopt1.lo -MD -MP -MF .deps/getopt1.Tpo -c -o getopt1.lo getopt1.c libtool: compile: gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O2 -Wall -Wunused -MT getopt1.lo -MD -MP -MF .deps/getopt1.Tpo -c getopt1.c -o getopt1.o libtool: compile: gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O2 -Wall -Wunused -MT getopt.lo -MD -MP -MF .deps/getopt.Tpo -c getopt.c -o getopt.o mv -f .deps/getopt.Tpo .deps/getopt.Plo mv -f .deps/getopt1.Tpo .deps/getopt1.Plo /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -Wall -Wunused -o libcoot-compat.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib getopt.lo getopt1.lo 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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/compat' Making all in utils make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/utils' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT coot-utils.lo -MD -MP -MF .deps/coot-utils.Tpo -c -o coot-utils.lo coot-utils.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT coot-fasta.lo -MD -MP -MF .deps/coot-fasta.Tpo -c -o coot-fasta.lo coot-fasta.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT atomic-numbers.lo -MD -MP -MF .deps/atomic-numbers.Tpo -c -o atomic-numbers.lo atomic-numbers.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT gdk-keysyms.lo -MD -MP -MF .deps/gdk-keysyms.Tpo -c -o gdk-keysyms.lo gdk-keysyms.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT coot-utils.lo -MD -MP -MF .deps/coot-utils.Tpo -c coot-utils.cc -o coot-utils.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT coot-fasta.lo -MD -MP -MF .deps/coot-fasta.Tpo -c coot-fasta.cc -o coot-fasta.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT gdk-keysyms.lo -MD -MP -MF .deps/gdk-keysyms.Tpo -c gdk-keysyms.cc -o gdk-keysyms.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT atomic-numbers.lo -MD -MP -MF .deps/atomic-numbers.Tpo -c atomic-numbers.cc -o atomic-numbers.o mv -f .deps/coot-fasta.Tpo .deps/coot-fasta.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT hsv-rgb.lo -MD -MP -MF .deps/hsv-rgb.Tpo -c -o hsv-rgb.lo hsv-rgb.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT hsv-rgb.lo -MD -MP -MF .deps/hsv-rgb.Tpo -c hsv-rgb.cc -o hsv-rgb.o mv -f .deps/atomic-numbers.Tpo .deps/atomic-numbers.Plo mv -f .deps/hsv-rgb.Tpo .deps/hsv-rgb.Plo mv -f .deps/coot-utils.Tpo .deps/coot-utils.Plo mv -f .deps/gdk-keysyms.Tpo .deps/gdk-keysyms.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -o libcoot-utils.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib coot-utils.lo coot-fasta.lo atomic-numbers.lo gdk-keysyms.lo hsv-rgb.lo libtool: link: ar cru .libs/libcoot-utils.a coot-utils.o coot-fasta.o atomic-numbers.o gdk-keysyms.o hsv-rgb.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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/utils' Making all in protein_db make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/protein_db' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT protein_db.lo -MD -MP -MF .deps/protein_db.Tpo -c -o protein_db.lo protein_db.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT protein_db_utils.lo -MD -MP -MF .deps/protein_db_utils.Tpo -c -o protein_db_utils.lo protein_db_utils.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT rna_db.lo -MD -MP -MF .deps/rna_db.Tpo -c -o rna_db.lo rna_db.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT protein_db_utils.lo -MD -MP -MF .deps/protein_db_utils.Tpo -c protein_db_utils.cpp -o protein_db_utils.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT protein_db.lo -MD -MP -MF .deps/protein_db.Tpo -c protein_db.cpp -o protein_db.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT rna_db.lo -MD -MP -MF .deps/rna_db.Tpo -c rna_db.cpp -o rna_db.o protein_db_utils.cpp: In constructor ‘ProteinDB::ScoreClashes::ScoreClashes(const std::vector&, const clipper::Spacegroup&, const clipper::Cell&, double)’: protein_db_utils.cpp:91:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < coords.size(); i++ ) { ^ protein_db.cpp: In member function ‘bool ProteinDB::Chain::save_db(clipper::String) const’: protein_db.cpp:244:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int r = 0; r < dbresidues.size(); r++ ) { ^ protein_db_utils.cpp: In member function ‘void ProteinDB::ScoreClashes::set_exclude(const std::vector&, double)’: protein_db_utils.cpp:126:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int a = 0; a < coords.size(); a++ ) { ^ protein_db_utils.cpp:128:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < atoms.size(); i++ ) ^ protein_db.cpp: In member function ‘bool ProteinDB::Chain::load_db(clipper::String)’: protein_db.cpp:272:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int r = 0; r < dbresidues.size(); r++ ) { ^ protein_db_utils.cpp: In member function ‘double ProteinDB::ScoreClashes::score(const ProteinDB::Chain&) const’: protein_db_utils.cpp:176:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < atoms.size(); i++ ) ^ protein_db.cpp: In member function ‘bool ProteinDB::Chain::merge(const ProteinDB::Chain&, const std::vector&)’: protein_db.cpp:282:29: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if ( wgt.size() != 3*size() ) return false; ^ protein_db.cpp:283:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int r = 0; r < dbresidues.size(); r++ ) ^ protein_db.cpp: In member function ‘bool ProteinDB::Chain::is_continuous() const’: protein_db.cpp:303:42: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < dbresidues.size()-1; i++ ) { ^ protein_db.cpp: In member function ‘void ProteinDB::Chain::transform(const clipper::RTop_orth&)’: protein_db.cpp:318:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int r = 0; r < dbresidues.size(); r++ ) ^ protein_db.cpp: In member function ‘double ProteinDB::Chain::rmsd(const ProteinDB::Chain&) const’: protein_db.cpp:354:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < dbresidues.size(); i++ ) { ^ protein_db.cpp: In member function ‘double ProteinDB::Chain::rmsd(const ProteinDB::Chain&, const std::vector&) const’: protein_db.cpp:368:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < dbresidues.size(); i++ ) { ^ protein_db_utils.cpp: In member function ‘std::vector ProteinDB::ProteinDBSearch::search(const ProteinDB::Chain&, int, ProteinDB::ScoreDensity&, ProteinDB::ScoreClashes&, double, double)’: protein_db_utils.cpp:213:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int f = 0; f < frags.size(); f++ ) { ^ protein_db.cpp: In member function ‘void ProteinDB::Chain::debug() const’: protein_db.cpp:382:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int r = 0; r < dbresidues.size(); r++ ) { ^ protein_db_utils.cpp:228:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int f = 0; f < frags.size(); f++ ) { ^ protein_db.cpp: In member function ‘void ProteinDB::ChainDB::calc_distances()’: protein_db.cpp:412:42: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < dbresidues.size()-1; i++ ) { ^ protein_db.cpp:425:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < dbdistvecs.size(); i++ ) { ^ protein_db.cpp: In member function ‘double ProteinDB::ChainDB::score_distance(const ProteinDB::ChainDB&, int, double, const std::vector&) const’: protein_db.cpp:547:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < types.size(); i++ ) ^ protein_db.cpp: In member function ‘std::vector ProteinDB::ChainDB::match_fragment_preliminary(const ProteinDB::ChainDB&, int) const’: protein_db.cpp:566:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < dbresidues.size(); i++ ) { ^ protein_db.cpp:570:34: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if ( scores_dist.size() >= 2*nhit ) { // optimisation ^ protein_db.cpp:582:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if ( i < scores_dist.size() ) ^ protein_db.cpp: In member function ‘std::vector ProteinDB::ChainDB::match_fragment(const ProteinDB::ChainDB&, int, int) const’: protein_db.cpp:610:41: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < scores_dist.size(); i++ ) { ^ protein_db.cpp:618:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if ( scores_lsq.size() > nlsq ) scores_lsq.resize( nlsq ); ^ protein_db.cpp:622:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < scores_lsq.size(); i++ ) { ^ mv -f .deps/rna_db.Tpo .deps/rna_db.Plo mv -f .deps/protein_db_utils.Tpo .deps/protein_db_utils.Plo mv -f .deps/protein_db.Tpo .deps/protein_db.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -o libcoot-protein-db.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib protein_db.lo protein_db_utils.lo rna_db.lo -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lmmdb2 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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/protein_db' Making all in mini-mol make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/mini-mol' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT mini-mol.lo -MD -MP -MF .deps/mini-mol.Tpo -c -o mini-mol.lo mini-mol.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT mini-mol-utils.lo -MD -MP -MF .deps/mini-mol-utils.Tpo -c -o mini-mol-utils.lo mini-mol-utils.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT atom-quads.lo -MD -MP -MF .deps/atom-quads.Tpo -c -o atom-quads.lo atom-quads.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT mini-mol.lo -MD -MP -MF .deps/mini-mol.Tpo -c mini-mol.cc -o mini-mol.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT mini-mol-utils.lo -MD -MP -MF .deps/mini-mol-utils.Tpo -c mini-mol-utils.cc -o mini-mol-utils.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT atom-quads.lo -MD -MP -MF .deps/atom-quads.Tpo -c atom-quads.cc -o atom-quads.o mv -f .deps/mini-mol-utils.Tpo .deps/mini-mol-utils.Plo mv -f .deps/atom-quads.Tpo .deps/atom-quads.Plo mv -f .deps/mini-mol.Tpo .deps/mini-mol.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -o libcoot-mini-mol.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib mini-mol.lo mini-mol-utils.lo atom-quads.lo -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/mini-mol' Making all in geometry make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/geometry' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT protein-geometry.lo -MD -MP -MF .deps/protein-geometry.Tpo -c -o protein-geometry.lo protein-geometry.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT protein-geometry-mmdb.lo -MD -MP -MF .deps/protein-geometry-mmdb.Tpo -c -o protein-geometry-mmdb.lo protein-geometry-mmdb.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT read-sbase.lo -MD -MP -MF .deps/read-sbase.Tpo -c -o read-sbase.lo read-sbase.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT energy-lib.lo -MD -MP -MF .deps/energy-lib.Tpo -c -o energy-lib.lo energy-lib.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share\" -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT protein-geometry.lo -MD -MP -MF .deps/protein-geometry.Tpo -c protein-geometry.cc -o protein-geometry.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share\" -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT protein-geometry-mmdb.lo -MD -MP -MF .deps/protein-geometry-mmdb.Tpo -c protein-geometry-mmdb.cc -o protein-geometry-mmdb.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share\" -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT read-sbase.lo -MD -MP -MF .deps/read-sbase.Tpo -c read-sbase.cc -o read-sbase.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share\" -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT energy-lib.lo -MD -MP -MF .deps/energy-lib.Tpo -c energy-lib.cc -o energy-lib.o mv -f .deps/protein-geometry-mmdb.Tpo .deps/protein-geometry-mmdb.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 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-DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT lbg-graph.lo -MD -MP -MF .deps/lbg-graph.Tpo -c -o lbg-graph.lo lbg-graph.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 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-I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share\" -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT dict-utils.lo -MD -MP -MF .deps/dict-utils.Tpo -c dict-utils.cc -o dict-utils.o mv -f .deps/dreiding.Tpo .deps/dreiding.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT cif-parse.lo -MD -MP -MF .deps/cif-parse.Tpo -c -o cif-parse.lo cif-parse.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share\" -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT cif-parse.lo -MD -MP -MF .deps/cif-parse.Tpo -c cif-parse.cc -o cif-parse.o mv -f .deps/chem_mods.Tpo .deps/chem_mods.Plo g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT compare-dictionaries.o -MD -MP -MF .deps/compare-dictionaries.Tpo -c -o compare-dictionaries.o compare-dictionaries.cc mv -f .deps/compare-dictionaries.Tpo .deps/compare-dictionaries.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT make-shelx-restraints.o -MD -MP -MF .deps/make-shelx-restraints.Tpo -c -o make-shelx-restraints.o make-shelx-restraints.cc mv -f .deps/dict-utils.Tpo .deps/dict-utils.Plo g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT dictionary-bond-distributions.o -MD -MP -MF .deps/dictionary-bond-distributions.Tpo -c -o dictionary-bond-distributions.o dictionary-bond-distributions.cc mv -f .deps/protein-geometry.Tpo .deps/protein-geometry.Plo g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -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/available-comp-id.Tpo .deps/available-comp-id.Po mv -f .deps/make-shelx-restraints.Tpo .deps/make-shelx-restraints.Po mv -f .deps/dictionary-bond-distributions.Tpo .deps/dictionary-bond-distributions.Po mv -f .deps/cif-parse.Tpo .deps/cif-parse.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -o libcoot-geometry.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib protein-geometry.lo protein-geometry-mmdb.lo read-sbase.lo energy-lib.lo chem_mods.lo lbg-graph.lo dreiding.lo dict-utils.lo cif-parse.lo ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lmmdb2 libtool: link: ar cru .libs/libcoot-geometry.a protein-geometry.o protein-geometry-mmdb.o read-sbase.o energy-lib.o chem_mods.o lbg-graph.o dreiding.o dict-utils.o cif-parse.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/bash ../libtool --tag=CXX --mode=link g++ -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -o coot.compare-dictionaries compare-dictionaries.o ./libcoot-geometry.la /bin/bash ../libtool --tag=CXX --mode=link g++ -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -o coot.dictionary-bond-distributions dictionary-bond-distributions.o ./libcoot-geometry.la /bin/bash ../libtool --tag=CXX --mode=link g++ -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -o coot.make-shelx-restraints make-shelx-restraints.o ./libcoot-geometry.la /bin/bash ../libtool --tag=CXX --mode=link g++ -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -o coot.available-comp-id available-comp-id.o ./libcoot-geometry.la libtool: link: g++ -DDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share\" -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -o coot.compare-dictionaries compare-dictionaries.o ./.libs/libcoot-geometry.a -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/mini-mol/.libs/libcoot-mini-mol.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/utils/.libs/libcoot-utils.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-ccp4.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-cif.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-minimol.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-mmdb.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-cns.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-phs.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-contrib.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-core.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/librfftw.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libfftw.so -lm -lpthread /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libccp4c.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libmmdb2.so -Wl,-rpath -Wl,/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -Wl,-rpath -Wl,/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib libtool: link: g++ -DDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share\" -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -o coot.dictionary-bond-distributions dictionary-bond-distributions.o ./.libs/libcoot-geometry.a -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/mini-mol/.libs/libcoot-mini-mol.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/utils/.libs/libcoot-utils.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-ccp4.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-cif.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-minimol.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-mmdb.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-cns.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-phs.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-contrib.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-core.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/librfftw.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libfftw.so -lm -lpthread /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libccp4c.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libmmdb2.so -Wl,-rpath -Wl,/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -Wl,-rpath -Wl,/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib libtool: link: g++ -DDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share\" -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -o coot.available-comp-id available-comp-id.o ./.libs/libcoot-geometry.a -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/mini-mol/.libs/libcoot-mini-mol.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/utils/.libs/libcoot-utils.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-ccp4.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-cif.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-minimol.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-mmdb.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-cns.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-phs.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-contrib.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-core.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/librfftw.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libfftw.so -lm -lpthread /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libccp4c.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libmmdb2.so -Wl,-rpath -Wl,/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -Wl,-rpath -Wl,/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib libtool: link: g++ -DDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share\" -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -o coot.make-shelx-restraints make-shelx-restraints.o ./.libs/libcoot-geometry.a -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/mini-mol/.libs/libcoot-mini-mol.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/utils/.libs/libcoot-utils.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-ccp4.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-cif.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-minimol.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-mmdb.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-cns.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-phs.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-contrib.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-core.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/librfftw.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libfftw.so -lm -lpthread /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libccp4c.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libmmdb2.so -Wl,-rpath -Wl,/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -Wl,-rpath -Wl,/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/geometry' Making all in coot-utils make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT coot-coord-utils.lo -MD -MP -MF .deps/coot-coord-utils.Tpo -c -o coot-coord-utils.lo coot-coord-utils.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -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/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT coot-rama.lo -MD -MP -MF .deps/coot-rama.Tpo -c -o coot-rama.lo coot-rama.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT coot-h-bonds.lo -MD -MP -MF .deps/coot-h-bonds.Tpo -c -o coot-h-bonds.lo coot-h-bonds.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT coot-coord-utils.lo -MD -MP -MF .deps/coot-coord-utils.Tpo -c coot-coord-utils.cc -o coot-coord-utils.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT coot-h-bonds.lo -MD -MP -MF .deps/coot-h-bonds.Tpo -c coot-h-bonds.cc -o coot-h-bonds.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -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 libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT coot-rama.lo -MD -MP -MF .deps/coot-rama.Tpo -c coot-rama.cc -o coot-rama.o mv -f .deps/coot-rama.Tpo .deps/coot-rama.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT hole.lo -MD -MP -MF .deps/hole.Tpo -c -o hole.lo hole.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 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-DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT coot-shelx-ins.lo -MD -MP -MF .deps/coot-shelx-ins.Tpo -c coot-shelx-ins.cc -o coot-shelx-ins.o mv -f .deps/glyco-torsions.Tpo .deps/glyco-torsions.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -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++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT coot-coord-extras.lo -MD -MP -MF .deps/coot-coord-extras.Tpo -c coot-coord-extras.cc -o coot-coord-extras.o mv -f .deps/coot-coord-utils.Tpo .deps/coot-coord-utils.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -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++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT coot-coord-lsq.lo -MD -MP -MF .deps/coot-coord-lsq.Tpo -c coot-coord-lsq.cc -o coot-coord-lsq.o mv -f .deps/atom-overlaps.Tpo .deps/atom-overlaps.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -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++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT coot-tree-extras.lo -MD -MP -MF .deps/coot-tree-extras.Tpo -c coot-tree-extras.cc -o coot-tree-extras.o mv -f .deps/coot-shelx-ins.Tpo .deps/coot-shelx-ins.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT water-coordination.lo -MD -MP -MF .deps/water-coordination.Tpo -c -o water-coordination.lo water-coordination.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT water-coordination.lo -MD -MP -MF .deps/water-coordination.Tpo -c water-coordination.cc -o water-coordination.o coot-tree-extras.cc: In member function ‘bool coot::atom_tree_t::fill_torsions(const coot::dictionary_residue_restraints_t&, mmdb::Residue*, const string&)’: coot-tree-extras.cc:229:29: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if (iv == quads[iquad].index2) { ^ coot-tree-extras.cc: In member function ‘std::pair > coot::atom_tree_t::get_forward_atoms(const coot::map_index_t&, const coot::map_index_t&) const’: coot-tree-extras.cc:1161:46: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if (index.index() >= atom_vertex_vec.size()) ^ mv -f .deps/coot-coord-lsq.Tpo .deps/coot-coord-lsq.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT lsq-improve.lo -MD -MP -MF .deps/lsq-improve.Tpo -c -o lsq-improve.lo lsq-improve.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT lsq-improve.lo -MD -MP -MF .deps/lsq-improve.Tpo -c lsq-improve.cc -o lsq-improve.o mv -f .deps/water-coordination.Tpo .deps/water-coordination.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -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++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -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 mv -f .deps/coot-tree-extras.Tpo .deps/coot-tree-extras.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT coot-map-utils.lo -MD -MP -MF .deps/coot-map-utils.Tpo -c -o coot-map-utils.lo coot-map-utils.cc mv -f .deps/coot-coord-extras.Tpo .deps/coot-coord-extras.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 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-DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT trim.lo -MD -MP -MF .deps/trim.Tpo -c trim.cc -o trim.o mv -f .deps/trim.Tpo .deps/trim.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 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-DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT maps-spherical.lo -MD -MP -MF .deps/maps-spherical.Tpo -c -o maps-spherical.lo maps-spherical.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT maps-spherical.lo -MD -MP -MF .deps/maps-spherical.Tpo -c maps-spherical.cc -o maps-spherical.o mv -f .deps/peak-search.Tpo .deps/peak-search.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -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++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT coot-map-heavy.lo -MD -MP -MF .deps/coot-map-heavy.Tpo -c coot-map-heavy.cc -o coot-map-heavy.o mv -f .deps/xmap-stats.Tpo .deps/xmap-stats.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT coot-fffear.lo -MD -MP -MF .deps/coot-fffear.Tpo -c -o coot-fffear.lo coot-fffear.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_GUILE -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT coot-fffear.lo -MD -MP -MF .deps/coot-fffear.Tpo -c coot-fffear.cc -o coot-fffear.o mv -f .deps/coot-map-heavy.Tpo .deps/coot-map-heavy.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -o libcoot-coord-utils.la -rpath /home/paule/autobuild/Linux-ubuntu1404-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 ../geometry/libcoot-geometry.la -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lgsl -lgslcblas -lm 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 libtool: link: ranlib .libs/libcoot-coord-utils.a mv -f .deps/maps-spherical.Tpo .deps/maps-spherical.Plo libtool: link: ( cd ".libs" && rm -f "libcoot-coord-utils.la" && ln -s "../libcoot-coord-utils.la" "libcoot-coord-utils.la" ) /bin/bash ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -o libcoot-shelx.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib coot-shelx-ins.lo libcoot-coord-utils.la ../utils/libcoot-utils.la /bin/bash ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL 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libcoot-map-utils.la libcoot-coord-utils.la -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lgsl -lgslcblas -lm libtool: link: ar cru .libs/libcoot-map-heavy.a coot-map-heavy.o coot-fffear.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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils' Making all in surface make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/surface' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 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g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXSphereElement.lo -MD -MP -MF .deps/CXXSphereElement.Tpo -c CXXSphereElement.cpp -o CXXSphereElement.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 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-DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXCircle.lo -MD -MP -MF .deps/CXXCircle.Tpo -c CXXCircle.cpp -o CXXCircle.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXSphereNode.lo -MD -MP -MF .deps/CXXSphereNode.Tpo -c CXXSphereNode.cpp -o CXXSphereNode.o In file included from CXXNewHood.h:22:0, from CXXSphereElement.cpp:19: CXXBall.h:79:0: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (unitSphereAtOrigin) ^ In file included from CXXNewHood.h:22:0, from CXXCircle.cpp:12: CXXBall.h:79:0: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (unitSphereAtOrigin) ^ mv -f .deps/CXXSphereNode.Tpo .deps/CXXSphereNode.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXSphereTriangle.lo -MD -MP -MF .deps/CXXSphereTriangle.Tpo -c -o CXXSphereTriangle.lo CXXSphereTriangle.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXSphereTriangle.lo -MD -MP -MF .deps/CXXSphereTriangle.Tpo -c CXXSphereTriangle.cpp -o CXXSphereTriangle.o mv -f .deps/CXXSphereTriangle.Tpo .deps/CXXSphereTriangle.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXCircleNode.lo -MD -MP -MF .deps/CXXCircleNode.Tpo -c -o CXXCircleNode.lo CXXCircleNode.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXCircleNode.lo -MD -MP -MF .deps/CXXCircleNode.Tpo -c CXXCircleNode.cpp -o CXXCircleNode.o mv -f .deps/CXXCircle.Tpo .deps/CXXCircle.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXSphereTriangleEdge.lo -MD -MP -MF .deps/CXXSphereTriangleEdge.Tpo -c -o CXXSphereTriangleEdge.lo CXXSphereTriangleEdge.cpp In file included from CXXNewHood.h:22:0, from CXXCircleNode.cpp:13: CXXBall.h:79:0: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (unitSphereAtOrigin) ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXSphereTriangleEdge.lo -MD -MP -MF .deps/CXXSphereTriangleEdge.Tpo -c CXXSphereTriangleEdge.cpp -o CXXSphereTriangleEdge.o mv -f .deps/CXXChargeTable.Tpo .deps/CXXChargeTable.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXCoord.lo -MD -MP -MF .deps/CXXCoord.Tpo -c -o CXXCoord.lo CXXCoord.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXCoord.lo -MD -MP -MF .deps/CXXCoord.Tpo -c CXXCoord.cpp -o CXXCoord.o CXXCircleNode.cpp: In static member function ‘static int CXXCircleNode::probeContacts(std::vector >&, double, std::map > >&)’: CXXCircleNode.cpp:161:77: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int iCentralProbe = 0; iCentralProbe < centralBin.size(); iCentralProbe++){ ^ mv -f .deps/CXXCoord.Tpo .deps/CXXCoord.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXSurface.lo -MD -MP -MF .deps/CXXSurface.Tpo -c -o CXXSurface.lo CXXSurface.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXSurface.lo -MD -MP -MF .deps/CXXSurface.Tpo -c CXXSurface.cpp -o CXXSurface.o In file included from CXXNewHood.h:22:0, from CXXSurface.cpp:17: CXXBall.h:79:0: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (unitSphereAtOrigin) ^ CXXSurface.cpp:593:0: warning: ignoring #pragma omp parallel [-Wunknown-pragmas] #pragma omp parallel for default(none) shared(nSelAtoms, SelAtom, cout, unitSphereAtOrigin, vdwBallPntrs, contactMap, ContextSelAtom, splitReentrantProbes) schedule(dynamic, 100) //num_threads(2) ^ CXXSurface.cpp:597:0: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical(cout) ^ CXXSurface.cpp:618:0: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (mainTriangles) ^ mv -f .deps/CXXSphereTriangleEdge.Tpo .deps/CXXSphereTriangleEdge.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXCreator.lo -MD -MP -MF .deps/CXXCreator.Tpo -c -o CXXCreator.lo CXXCreator.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXCreator.lo -MD -MP -MF .deps/CXXCreator.Tpo -c CXXCreator.cpp -o CXXCreator.o CXXSurface.cpp: In member function ‘int CXXSurface::calculateVDWFromAtoms(mmdb::PManager, int, int, double, double, bool)’: CXXSurface.cpp:496:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i=0; i(vdwBallPntrs[i]); ^ CXXSurface.cpp:636:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i=0; i(contextBallPntrs[i]); ^ CXXSurface.cpp:640:39: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i=0; i(reentrantProbes[i]); ^ CXXSurface.cpp: In member function ‘void CXXSurface::compress(double)’: CXXSurface.cpp:1179:32: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i=0; i >&, std::vector >&, double, CXXSurface*, int)’: CXXBall.cpp:58:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i=0; i >&, std::vector >&, std::map > >&)’: CXXBall.cpp:201:41: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int iBall=0; iBall< balls.size(); iBall++){ ^ mv -f .deps/CXXNewHood.Tpo .deps/CXXNewHood.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXQADSurfaceStaticData.lo -MD -MP -MF .deps/CXXQADSurfaceStaticData.Tpo -c -o CXXQADSurfaceStaticData.lo CXXQADSurfaceStaticData.cpp mv -f .deps/CXXSurface.Tpo .deps/CXXSurface.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXSpace.lo -MD -MP -MF .deps/CXXSpace.Tpo -c -o CXXSpace.lo CXXSpace.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXQADSurfaceStaticData.lo -MD -MP -MF .deps/CXXQADSurfaceStaticData.Tpo -c CXXQADSurfaceStaticData.cpp -o CXXQADSurfaceStaticData.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXSpace.lo -MD -MP -MF .deps/CXXSpace.Tpo -c CXXSpace.cpp -o CXXSpace.o In file included from CXXNewHood.h:22:0, from CXXQADSurface.h:11, from CXXQADSurfaceStaticData.cpp:1: CXXBall.h:79:0: warning: ignoring #pragma omp critical [-Wunknown-pragmas] #pragma omp critical (unitSphereAtOrigin) ^ mv -f .deps/CXXSpace.Tpo .deps/CXXSpace.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXUtils.lo -MD -MP -MF .deps/CXXUtils.Tpo -c -o CXXUtils.lo CXXUtils.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I../coot-utils -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CXXUtils.lo -MD -MP -MF .deps/CXXUtils.Tpo -c CXXUtils.cpp -o CXXUtils.o mv -f .deps/CXXQADSurfaceStaticData.Tpo .deps/CXXQADSurfaceStaticData.Plo mv -f .deps/CXXBall.Tpo .deps/CXXBall.Plo mv -f .deps/CXXQADSurface.Tpo .deps/CXXQADSurface.Plo mv -f .deps/CXXUtils.Tpo .deps/CXXUtils.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -o libccp4mg-surface.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib CXXSphereElement.lo CXXChargeTable.lo CXXSphereNode.lo CXXCircle.lo CXXSphereTriangle.lo CXXCircleNode.lo CXXSphereTriangleEdge.lo CXXCoord.lo CXXSurface.lo CXXCreator.lo CXXSurfaceVertex.lo CXXException.lo CXXTorusElement.lo CXXFFTSolventMap.lo CXXTorusNode.lo CXXFortranFile.lo CXXNewHood.lo CXXTriangle.lo CXXNode.lo CXXQADSurface.lo CXXBall.lo CXXQADSurfaceStaticData.lo CXXSpace.lo CXXUtils.lo -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lrfftw -lfftw -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lmmdb2 libtool: link: ar cru .libs/libccp4mg-surface.a CXXSphereElement.o CXXChargeTable.o CXXSphereNode.o CXXCircle.o CXXSphereTriangle.o CXXCircleNode.o CXXSphereTriangleEdge.o CXXCoord.o CXXSurface.o CXXCreator.o CXXSurfaceVertex.o CXXException.o CXXTorusElement.o CXXFFTSolventMap.o CXXTorusNode.o CXXFortranFile.o CXXNewHood.o CXXTriangle.o CXXNode.o CXXQADSurface.o CXXBall.o CXXQADSurfaceStaticData.o CXXSpace.o CXXUtils.o libtool: link: ranlib .libs/libccp4mg-surface.a libtool: link: ( cd ".libs" && rm -f "libccp4mg-surface.la" && ln -s "../libccp4mg-surface.la" "libccp4mg-surface.la" ) make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/surface' Making all in coot-surface make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-surface' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT coot-surface.lo -MD -MP -MF .deps/coot-surface.Tpo -c -o coot-surface.lo coot-surface.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT rgbreps.lo -MD -MP -MF .deps/rgbreps.Tpo -c -o rgbreps.lo rgbreps.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT coot-surface.lo -MD -MP -MF .deps/coot-surface.Tpo -c coot-surface.cc -o coot-surface.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT rgbreps.lo -MD -MP -MF .deps/rgbreps.Tpo -c rgbreps.cc -o rgbreps.o rgbreps.cc: In static member function ‘static int RGBReps::GetColourNumber(std::string)’: rgbreps.cc:71:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i=0;i > RGBReps::GetColourDefinitions(std::vector, int)’: rgbreps.cc:112:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (unsigned int i=0;i< n_codes;i++) { ^ rgbreps.cc:115:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if (ii>colours.size()){ ^ mv -f .deps/rgbreps.Tpo .deps/rgbreps.Plo mv -f .deps/coot-surface.Tpo .deps/coot-surface.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -o libcoot-surface.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib coot-surface.lo rgbreps.lo ../surface/libccp4mg-surface.la -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lglut -L/usr/X11R6/lib -lGL libtool: link: ar cru .libs/libcoot-surface.a coot-surface.o rgbreps.o libtool: link: ranlib .libs/libcoot-surface.a libtool: link: ( cd ".libs" && rm -f "libcoot-surface.la" && ln -s "../libcoot-surface.la" "libcoot-surface.la" ) make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-surface' Making all in lidia-core make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/lidia-core' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT lbg-shared.lo -MD -MP -MF .deps/lbg-shared.Tpo -c -o lbg-shared.lo lbg-shared.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT lbg-molfile.lo -MD -MP -MF .deps/lbg-molfile.Tpo -c -o lbg-molfile.lo lbg-molfile.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT lig-build.lo -MD -MP -MF .deps/lig-build.Tpo -c -o lig-build.lo lig-build.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT rdkit-interface.lo -MD -MP -MF .deps/rdkit-interface.Tpo -c -o rdkit-interface.lo rdkit-interface.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT rdkit-interface.lo -MD -MP -MF .deps/rdkit-interface.Tpo -c rdkit-interface.cc -o rdkit-interface.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT lig-build.lo -MD -MP -MF .deps/lig-build.Tpo -c lig-build.cc -o lig-build.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT lbg-shared.lo -MD -MP -MF .deps/lbg-shared.Tpo -c lbg-shared.cc -o lbg-shared.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT lbg-molfile.lo -MD -MP -MF .deps/lbg-molfile.Tpo -c lbg-molfile.cc -o lbg-molfile.o mv -f .deps/rdkit-interface.Tpo .deps/rdkit-interface.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT cod-types.lo -MD -MP -MF .deps/cod-types.Tpo -c -o cod-types.lo cod-types.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT cod-types.lo -MD -MP -MF .deps/cod-types.Tpo -c cod-types.cc -o cod-types.o mv -f .deps/cod-types.Tpo .deps/cod-types.Plo mv -f .deps/lbg-shared.Tpo .deps/lbg-shared.Plo mv -f .deps/lig-build.Tpo .deps/lig-build.Plo mv -f .deps/lbg-molfile.Tpo .deps/lbg-molfile.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -o libcoot-lidia-core.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib lbg-shared.lo lbg-molfile.lo lig-build.lo rdkit-interface.lo cod-types.lo ../geometry/libcoot-geometry.la ../utils/libcoot-utils.la ../coot-utils/libcoot-coord-utils.la libtool: link: ar cru .libs/libcoot-lidia-core.a lbg-shared.o lbg-molfile.o lig-build.o rdkit-interface.o cod-types.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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/lidia-core' Making all in coords make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coords' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -g -O -Wall -Wno-unused -MT Bond_lines.lo -MD -MP -MF .deps/Bond_lines.Tpo -c -o Bond_lines.lo Bond_lines.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -g -O -Wall -Wno-unused -MT Cartesian.lo -MD -MP -MF .deps/Cartesian.Tpo -c -o Cartesian.lo Cartesian.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -g -O -Wall -Wno-unused -MT cos-sin.lo -MD -MP -MF .deps/cos-sin.Tpo -c -o cos-sin.lo cos-sin.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -g -O -Wall -Wno-unused -MT mmdb-extras.lo -MD -MP -MF .deps/mmdb-extras.Tpo -c -o mmdb-extras.lo mmdb-extras.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -DDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share\" -g -O -Wall -Wno-unused -MT cos-sin.lo -MD -MP -MF .deps/cos-sin.Tpo -c cos-sin.cc -o cos-sin.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -DDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share\" -g -O -Wall -Wno-unused -MT 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-DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -DDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share\" -g -O -Wall -Wno-unused -MT mmdb.lo -MD -MP -MF .deps/mmdb.Tpo -c mmdb.cc -o mmdb.o mv -f .deps/Cartesian.Tpo .deps/Cartesian.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -g -O -Wall -Wno-unused -MT mmdb-crystal.lo -MD -MP -MF .deps/mmdb-crystal.Tpo -c -o mmdb-crystal.lo mmdb-crystal.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 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-DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -DDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share\" -g -O -Wall -Wno-unused -MT Bond_lines_ext.lo -MD -MP -MF .deps/Bond_lines_ext.Tpo -c Bond_lines_ext.cc -o Bond_lines_ext.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. 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-I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -g -O -Wall -Wno-unused -MT phenix-geo.lo -MD -MP -MF .deps/phenix-geo.Tpo -c -o phenix-geo.lo phenix-geo.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -DDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share\" -g -O -Wall -Wno-unused -MT phenix-geo.lo -MD -MP -MF .deps/phenix-geo.Tpo -c phenix-geo.cc -o phenix-geo.o mv -f .deps/Bond_lines_ext.Tpo .deps/Bond_lines_ext.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -g -O -Wall -Wno-unused -MT phenix-geo-bonds.lo -MD -MP -MF .deps/phenix-geo-bonds.Tpo -c -o phenix-geo-bonds.lo phenix-geo-bonds.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -DDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share\" -g -O -Wall -Wno-unused -MT phenix-geo-bonds.lo -MD -MP -MF .deps/phenix-geo-bonds.Tpo -c phenix-geo-bonds.cc -o phenix-geo-bonds.o mv -f .deps/mmdb-extras.Tpo .deps/mmdb-extras.Plo mv -f .deps/phenix-geo.Tpo .deps/phenix-geo.Plo mv -f .deps/Bond_lines.Tpo .deps/Bond_lines.Plo mv -f .deps/phenix-geo-bonds.Tpo .deps/phenix-geo-bonds.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -g -O -Wall -Wno-unused -o libcoot-coords.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib Bond_lines.lo Cartesian.lo cos-sin.lo mmdb-extras.lo utils.lo mmdb.lo mmdb-crystal.lo Bond_lines_ext.lo coot-close.lo phenix-geo.lo phenix-geo-bonds.lo ../geometry/libcoot-geometry.la ../coot-utils/libcoot-shelx.la ../coot-utils/libcoot-coord-utils.la ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lmmdb2 libtool: link: ar cru .libs/libcoot-coords.a Bond_lines.o Cartesian.o cos-sin.o mmdb-extras.o utils.o mmdb.o mmdb-crystal.o Bond_lines_ext.o coot-close.o phenix-geo.o phenix-geo-bonds.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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coords' Making all in angles make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/angles' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O1 -g -O -Wall -Wno-unused -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/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O1 -g -O -Wall -Wno-unused -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/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O1 -g -O -Wall -Wno-unused -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++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O1 -g -O -Wall -Wno-unused -MT libcoot_AngleInfo_la-AngleInfo.lo -MD -MP -MF .deps/libcoot_AngleInfo_la-AngleInfo.Tpo -c AngleInfo.cc -o libcoot_AngleInfo_la-AngleInfo.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O1 -g -O -Wall -Wno-unused -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 libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O1 -g -O -Wall -Wno-unused -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 mv -f .deps/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.Tpo .deps/libcoot_AngleInfo_la-AngleInfo-theta_2-autogen.Plo 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/bash ../libtool --tag=CXX --mode=link g++ -g -O1 -g -O -Wall -Wno-unused -o libcoot-AngleInfo.la -rpath /home/paule/autobuild/Linux-ubuntu1404-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: 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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/angles' Making all in skeleton make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/skeleton' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT dm-utils.lo -MD -MP -MF .deps/dm-utils.Tpo -c -o dm-utils.lo dm-utils.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT graphical_skel.lo -MD -MP -MF .deps/graphical_skel.Tpo -c -o graphical_skel.lo graphical_skel.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT BuildCas.lo -MD -MP -MF .deps/BuildCas.Tpo -c -o BuildCas.lo BuildCas.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT graphical_skel.lo -MD -MP -MF .deps/graphical_skel.Tpo -c graphical_skel.cc -o graphical_skel.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT dm-utils.lo -MD -MP -MF .deps/dm-utils.Tpo -c dm-utils.cc -o dm-utils.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT BuildCas.lo -MD -MP -MF .deps/BuildCas.Tpo -c BuildCas.cc -o BuildCas.o mv -f .deps/dm-utils.Tpo .deps/dm-utils.Plo mv -f .deps/graphical_skel.Tpo .deps/graphical_skel.Plo mv -f .deps/BuildCas.Tpo .deps/BuildCas.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -o libcoot-skeleton.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib dm-utils.lo graphical_skel.lo BuildCas.lo ../angles/libcoot-AngleInfo.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lmmdb2 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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/skeleton' Making all in ccp4mg-utils make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ccp4mg-utils' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_LIBPNG -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT geomutil.lo -MD -MP -MF .deps/geomutil.Tpo -c -o geomutil.lo geomutil.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_LIBPNG -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT mgtree.lo -MD -MP -MF .deps/mgtree.Tpo -c -o mgtree.lo mgtree.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_LIBPNG -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT cartesian.lo -MD -MP -MF .deps/cartesian.Tpo -c -o cartesian.lo cartesian.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_LIBPNG -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT matrix.lo -MD -MP -MF .deps/matrix.Tpo -c -o matrix.lo matrix.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_LIBPNG -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT mgtree.lo -MD -MP -MF .deps/mgtree.Tpo -c mgtree.cc -o mgtree.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_LIBPNG -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT geomutil.lo -MD -MP -MF .deps/geomutil.Tpo -c geomutil.cc -o geomutil.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_LIBPNG -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT cartesian.lo -MD -MP -MF .deps/cartesian.Tpo -c cartesian.cc -o cartesian.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_LIBPNG -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT matrix.lo -MD -MP -MF .deps/matrix.Tpo -c matrix.cc -o matrix.o mv -f .deps/cartesian.Tpo .deps/cartesian.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_LIBPNG -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT quat.lo -MD -MP -MF .deps/quat.Tpo -c -o quat.lo quat.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_LIBPNG -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT quat.lo -MD -MP -MF .deps/quat.Tpo -c quat.cc -o quat.o mv -f .deps/geomutil.Tpo .deps/geomutil.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_LIBPNG -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT ppmutil.lo -MD -MP -MF .deps/ppmutil.Tpo -c -o ppmutil.lo ppmutil.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_LIBPNG -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT ppmutil.lo -MD -MP -MF .deps/ppmutil.Tpo -c ppmutil.cc -o ppmutil.o mv -f .deps/quat.Tpo .deps/quat.Plo 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/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -o libccp4mg-utils.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib geomutil.lo mgtree.lo cartesian.lo matrix.lo quat.lo ppmutil.lo -lpng 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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ccp4mg-utils' Making all in density-contour make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/density-contour' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT Vectors.lo -MD -MP -MF .deps/Vectors.Tpo -c -o Vectors.lo Vectors.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CIsoSurface.lo -MD -MP -MF .deps/CIsoSurface.Tpo -c -o CIsoSurface.lo CIsoSurface.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT density-contour-triangles.lo -MD -MP -MF .deps/density-contour-triangles.Tpo -c -o density-contour-triangles.lo density-contour-triangles.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT Vectors.lo -MD -MP -MF .deps/Vectors.Tpo -c Vectors.cpp -o Vectors.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CIsoSurface.lo -MD -MP -MF .deps/CIsoSurface.Tpo -c CIsoSurface.cpp -o CIsoSurface.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT density-contour-triangles.lo -MD -MP -MF .deps/density-contour-triangles.Tpo -c density-contour-triangles.cc -o density-contour-triangles.o mv -f .deps/Vectors.Tpo .deps/Vectors.Plo mv -f .deps/density-contour-triangles.Tpo .deps/density-contour-triangles.Plo mv -f .deps/CIsoSurface.Tpo .deps/CIsoSurface.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -o libcoot-isosurface.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib Vectors.lo CIsoSurface.lo density-contour-triangles.lo ../coords/libcoot-coords.la -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 libtool: link: ar cru .libs/libcoot-isosurface.a Vectors.o CIsoSurface.o density-contour-triangles.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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/density-contour' Making all in db-main make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/db-main' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -g -O -Wall -Wno-unused -MT db-main.lo -MD -MP -MF .deps/db-main.Tpo -c -o db-main.lo db-main.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -g -O -Wall -Wno-unused -MT db-strands.lo -MD -MP -MF .deps/db-strands.Tpo -c -o db-strands.lo db-strands.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -DDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share\" -g -O -Wall -Wno-unused -MT db-main.lo -MD -MP -MF .deps/db-main.Tpo -c db-main.cc -o db-main.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -DDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share\" -g -O -Wall -Wno-unused -MT db-strands.lo -MD -MP -MF .deps/db-strands.Tpo -c db-strands.cc -o db-strands.o mv -f .deps/db-strands.Tpo .deps/db-strands.Plo mv -f .deps/db-main.Tpo .deps/db-main.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -g -O -Wall -Wno-unused -o libcoot-db-main.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib db-main.lo db-strands.lo ../mini-mol/libcoot-mini-mol.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lmmdb2 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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/db-main' Making all in ideal make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ideal' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT simple-restraint.lo -MD -MP -MF .deps/simple-restraint.Tpo -c -o simple-restraint.lo simple-restraint.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT chirals.lo -MD -MP -MF .deps/chirals.Tpo -c -o chirals.lo chirals.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT extra-restraints.lo -MD -MP -MF .deps/extra-restraints.Tpo -c -o extra-restraints.lo extra-restraints.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT pepflip.lo -MD -MP -MF .deps/pepflip.Tpo -c -o pepflip.lo pepflip.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT chirals.lo -MD -MP -MF .deps/chirals.Tpo -c chirals.cc -o chirals.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT extra-restraints.lo -MD -MP -MF .deps/extra-restraints.Tpo -c extra-restraints.cc -o extra-restraints.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT pepflip.lo -MD -MP -MF .deps/pepflip.Tpo -c pepflip.cc -o pepflip.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT simple-restraint.lo -MD -MP -MF .deps/simple-restraint.Tpo -c simple-restraint.cc -o simple-restraint.o mv -f .deps/pepflip.Tpo .deps/pepflip.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT regularize-minimol.lo -MD -MP -MF .deps/regularize-minimol.Tpo -c -o regularize-minimol.lo regularize-minimol.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT regularize-minimol.lo -MD -MP -MF .deps/regularize-minimol.Tpo -c regularize-minimol.cc -o regularize-minimol.o mv -f .deps/chirals.Tpo .deps/chirals.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT lograma.lo -MD -MP -MF .deps/lograma.Tpo -c -o lograma.lo lograma.cpp mv -f .deps/regularize-minimol.Tpo .deps/regularize-minimol.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 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0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT simple-restraint-kk.lo -MD -MP -MF .deps/simple-restraint-kk.Tpo -c simple-restraint-kk.cc -o simple-restraint-kk.o mv -f .deps/lograma.Tpo .deps/lograma.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT torsion-bonds.lo -MD -MP -MF .deps/torsion-bonds.Tpo -c -o torsion-bonds.lo torsion-bonds.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" 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/bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -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++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT coot-compare-residues.lo -MD -MP -MF .deps/coot-compare-residues.Tpo -c coot-compare-residues.cc -o coot-compare-residues.o mv -f .deps/extra-restraints-kk.Tpo .deps/extra-restraints-kk.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT link-restraints.lo -MD -MP -MF .deps/link-restraints.Tpo -c -o link-restraints.lo link-restraints.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT link-restraints.lo -MD -MP -MF .deps/link-restraints.Tpo -c link-restraints.cc -o link-restraints.o mv -f .deps/coot-compare-residues.Tpo .deps/coot-compare-residues.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT parallel-planes.lo -MD -MP -MF .deps/parallel-planes.Tpo -c -o parallel-planes.lo parallel-planes.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT parallel-planes.lo -MD -MP -MF .deps/parallel-planes.Tpo -c parallel-planes.cc -o parallel-planes.o mv -f .deps/parallel-planes.Tpo .deps/parallel-planes.Plo g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -MT mini-rsr.o -MD -MP -MF .deps/mini-rsr.Tpo -c -o mini-rsr.o mini-rsr.cc mv -f .deps/torsion-bonds.Tpo .deps/torsion-bonds.Plo mv -f .deps/simple-restraint.Tpo .deps/simple-restraint.Plo mv -f .deps/link-restraints.Tpo .deps/link-restraints.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -o libcoot-ideal.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib simple-restraint.lo chirals.lo extra-restraints.lo pepflip.lo regularize-minimol.lo lograma.lo extra-restraints-kk.lo simple-restraint-kk.lo torsion-bonds.lo coot-compare-residues.lo link-restraints.lo parallel-planes.lo ../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 ../utils/libcoot-utils.la ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lgsl -lgslcblas -lm libtool: link: ar cru .libs/libcoot-ideal.a simple-restraint.o chirals.o extra-restraints.o pepflip.o regularize-minimol.o lograma.o extra-restraints-kk.o simple-restraint-kk.o torsion-bonds.o coot-compare-residues.o link-restraints.o parallel-planes.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" ) mv -f .deps/mini-rsr.Tpo .deps/mini-rsr.Po /bin/bash ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -o mini-rsr mini-rsr.o ./libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-shelx.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la ../compat/libcoot-compat.la ../mini-mol/libcoot-mini-mol.la -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lgsl -lgslcblas -lm libtool: link: g++ -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -g -O -Wall -Wno-unused -o mini-rsr mini-rsr.o -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ./.libs/libcoot-ideal.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils/.libs/libcoot-map-heavy.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coords/.libs/libcoot-coords.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils/.libs/libcoot-coord-extras.a ../coot-utils/.libs/libcoot-map-heavy.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils/.libs/libcoot-map-utils.a ../geometry/.libs/libcoot-geometry.a ../coords/.libs/libcoot-coords.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils/.libs/libcoot-shelx.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/lidia-core/.libs/libcoot-lidia-core.a ../coot-utils/.libs/libcoot-map-utils.a ../coot-utils/.libs/libcoot-shelx.a ../coot-utils/.libs/libcoot-coord-extras.a ../coot-utils/.libs/libcoot-coord-utils.a ../lidia-core/.libs/libcoot-lidia-core.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils/.libs/libcoot-coord-utils.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/geometry/.libs/libcoot-geometry.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/mini-mol/.libs/libcoot-mini-mol.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/utils/.libs/libcoot-utils.a ../utils/.libs/libcoot-utils.a ../compat/.libs/libcoot-compat.a ../mini-mol/.libs/libcoot-mini-mol.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-ccp4.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-cif.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-minimol.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-mmdb.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-cns.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-phs.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-contrib.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-core.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/librfftw.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libfftw.so -lpthread /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libccp4c.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libmmdb2.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libgsl.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libgslcblas.so -lm -Wl,-rpath -Wl,/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -Wl,-rpath -Wl,/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ideal' Making all in ligand make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ligand' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT ligand.lo -MD -MP -MF .deps/ligand.Tpo -c -o ligand.lo ligand.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT ligand-extras.lo -MD -MP -MF .deps/ligand-extras.Tpo -c -o ligand-extras.lo ligand-extras.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -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/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT wiggly-ligand.lo -MD -MP -MF .deps/wiggly-ligand.Tpo -c -o wiggly-ligand.lo wiggly-ligand.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT ligand-extras.lo -MD -MP -MF .deps/ligand-extras.Tpo -c ligand-extras.cc -o ligand-extras.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT ligand.lo -MD -MP -MF .deps/ligand.Tpo -c ligand.cc -o ligand.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT wiggly-ligand.lo -MD -MP -MF .deps/wiggly-ligand.Tpo -c wiggly-ligand.cc -o wiggly-ligand.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -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 mv -f .deps/ligand-extras.Tpo .deps/ligand-extras.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT monomer-utils.lo -MD -MP -MF .deps/monomer-utils.Tpo -c -o monomer-utils.lo monomer-utils.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL 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-I. -I.. -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT dunbrack.lo -MD -MP -MF .deps/dunbrack.Tpo -c -o dunbrack.lo dunbrack.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include 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-DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT backrub-rotamer.lo -MD -MP -MF .deps/backrub-rotamer.Tpo -c backrub-rotamer.cc -o backrub-rotamer.o mv -f .deps/primitive-chi-angles.Tpo .deps/primitive-chi-angles.Plo g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT find-ligand.o -MD -MP -MF .deps/find-ligand.Tpo -c -o find-ligand.o find-ligand.cc mv -f .deps/richardson-rotamers.Tpo .deps/richardson-rotamers.Plo g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT find-waters.o -MD -MP -MF .deps/find-waters.Tpo -c -o find-waters.o find-waters.cc mv -f .deps/base-pairing.Tpo .deps/base-pairing.Plo mv -f .deps/find-waters.Tpo .deps/find-waters.Po mv -f .deps/find-ligand.Tpo .deps/find-ligand.Po mv -f .deps/backrub-rotamer.Tpo .deps/backrub-rotamer.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -o libcoot-ligand.la -rpath /home/paule/autobuild/Linux-ubuntu1404-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 ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../coords/libcoot-coords.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../coot-utils/libcoot-map-utils.la ../utils/libcoot-utils.la -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lmmdb2 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 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/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -o findligand-real find-ligand.o ./libcoot-ligand.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../db-main/libcoot-db-main.la ../ccp4mg-utils/libccp4mg-utils.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../lidia-core/libcoot-lidia-core.la ../coot-utils/libcoot-shelx.la ../mini-mol/libcoot-mini-mol.la ../compat/libcoot-compat.la -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lgsl -lgslcblas -lm /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -o findwaters-real find-waters.o ./libcoot-ligand.la ../ideal/libcoot-ideal.la ../coot-utils/libcoot-map-heavy.la ../geometry/libcoot-geometry.la ../coords/libcoot-coords.la ../ccp4mg-utils/libccp4mg-utils.la ../db-main/libcoot-db-main.la ../coot-utils/libcoot-coord-extras.la ../coot-utils/libcoot-map-utils.la ../coot-utils/libcoot-coord-utils.la ../utils/libcoot-utils.la ../lidia-core/libcoot-lidia-core.la ../coot-utils/libcoot-shelx.la ../mini-mol/libcoot-mini-mol.la ../compat/libcoot-compat.la -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lgsl -lgslcblas -lm libtool: link: g++ -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -o findligand-real find-ligand.o ./.libs/libcoot-ligand.a -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ideal/.libs/libcoot-ideal.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/db-main/.libs/libcoot-db-main.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ccp4mg-utils/.libs/libccp4mg-utils.a ../ideal/.libs/libcoot-ideal.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils/.libs/libcoot-map-heavy.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coords/.libs/libcoot-coords.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils/.libs/libcoot-coord-extras.a ../coot-utils/.libs/libcoot-map-heavy.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils/.libs/libcoot-map-utils.a ../geometry/.libs/libcoot-geometry.a ../coords/.libs/libcoot-coords.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils/.libs/libcoot-shelx.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/lidia-core/.libs/libcoot-lidia-core.a ../db-main/.libs/libcoot-db-main.a ../ccp4mg-utils/.libs/libccp4mg-utils.a -lpng ../coot-utils/.libs/libcoot-map-utils.a ../coot-utils/.libs/libcoot-coord-extras.a ../coot-utils/.libs/libcoot-coord-utils.a ../utils/.libs/libcoot-utils.a ../lidia-core/.libs/libcoot-lidia-core.a ../coot-utils/.libs/libcoot-shelx.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils/.libs/libcoot-coord-utils.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/geometry/.libs/libcoot-geometry.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/mini-mol/.libs/libcoot-mini-mol.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/utils/.libs/libcoot-utils.a ../mini-mol/.libs/libcoot-mini-mol.a ../compat/.libs/libcoot-compat.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-ccp4.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-cif.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-minimol.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-mmdb.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-cns.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-phs.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-contrib.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-core.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/librfftw.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libfftw.so -lpthread /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libccp4c.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libmmdb2.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libgsl.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libgslcblas.so -lm -Wl,-rpath -Wl,/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -Wl,-rpath -Wl,/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib libtool: link: g++ -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -o findwaters-real find-waters.o ./.libs/libcoot-ligand.a -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ideal/.libs/libcoot-ideal.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/db-main/.libs/libcoot-db-main.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ccp4mg-utils/.libs/libccp4mg-utils.a ../ideal/.libs/libcoot-ideal.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils/.libs/libcoot-map-heavy.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coords/.libs/libcoot-coords.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils/.libs/libcoot-coord-extras.a ../coot-utils/.libs/libcoot-map-heavy.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils/.libs/libcoot-map-utils.a ../geometry/.libs/libcoot-geometry.a ../coords/.libs/libcoot-coords.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils/.libs/libcoot-shelx.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/lidia-core/.libs/libcoot-lidia-core.a ../ccp4mg-utils/.libs/libccp4mg-utils.a -lpng ../db-main/.libs/libcoot-db-main.a ../coot-utils/.libs/libcoot-coord-extras.a ../coot-utils/.libs/libcoot-map-utils.a ../coot-utils/.libs/libcoot-coord-utils.a ../utils/.libs/libcoot-utils.a ../lidia-core/.libs/libcoot-lidia-core.a ../coot-utils/.libs/libcoot-shelx.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils/.libs/libcoot-coord-utils.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/geometry/.libs/libcoot-geometry.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/mini-mol/.libs/libcoot-mini-mol.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/utils/.libs/libcoot-utils.a ../mini-mol/.libs/libcoot-mini-mol.a ../compat/.libs/libcoot-compat.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-ccp4.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-cif.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-minimol.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-mmdb.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-cns.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-phs.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-contrib.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-core.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/librfftw.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libfftw.so -lpthread /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libccp4c.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libmmdb2.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libgsl.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libgslcblas.so -lm -Wl,-rpath -Wl,/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -Wl,-rpath -Wl,/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ligand' Making all in high-res make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/high-res' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT high-res.lo -MD -MP -MF .deps/high-res.Tpo -c -o high-res.lo high-res.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT coot-atom-graph.lo -MD -MP -MF .deps/coot-atom-graph.Tpo -c -o coot-atom-graph.lo coot-atom-graph.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT residue-distortions.lo -MD -MP -MF .deps/residue-distortions.Tpo -c -o residue-distortions.lo residue-distortions.cc /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT sequence-assignment.lo -MD -MP -MF .deps/sequence-assignment.Tpo -c -o sequence-assignment.lo sequence-assignment.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT coot-atom-graph.lo -MD -MP -MF .deps/coot-atom-graph.Tpo -c coot-atom-graph.cc -o coot-atom-graph.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT sequence-assignment.lo -MD -MP -MF .deps/sequence-assignment.Tpo -c sequence-assignment.cc -o sequence-assignment.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT high-res.lo -MD -MP -MF .deps/high-res.Tpo -c high-res.cc -o high-res.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT residue-distortions.lo -MD -MP -MF .deps/residue-distortions.Tpo -c residue-distortions.cc -o residue-distortions.o mv -f .deps/residue-distortions.Tpo .deps/residue-distortions.Plo 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/bash ../libtool --tag=CXX --mode=link g++ -DHAVE_GSL -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -o libcoot-high-res.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib high-res.lo coot-atom-graph.lo residue-distortions.lo sequence-assignment.lo ../mini-mol/libcoot-mini-mol.la ../ligand/libcoot-ligand.la -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lmmdb2 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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/high-res' Making all in build make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/build' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CalphaBuild.lo -MD -MP -MF .deps/CalphaBuild.Tpo -c -o CalphaBuild.lo CalphaBuild.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT CalphaBuild.lo -MD -MP -MF .deps/CalphaBuild.Tpo -c CalphaBuild.cc -o CalphaBuild.o CalphaBuild.cc: In member function ‘std::vector coot::CalphaBuild::next_ca_by_skel(const std::vector&, const clipper::Coord_grid&, short int, float, const clipper::Xmap&, const clipper::Xmap&, float, const clipper::Xmap&) const’: CalphaBuild.cc:67:42: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i=0; i coot::CalphaBuild::next_ca_internal(const std::vector&, const clipper::Coord_grid&, short int, float, const clipper::Xmap&, const clipper::Xmap&, float, const clipper::Xmap&, int) const’: CalphaBuild.cc:198:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int i=0; i coot::CalphaBuild::cluster(const std::vector&, const clipper::Coord_orth&) const’: CalphaBuild.cc:318:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i=0; i&, const std::vector&, const widgeted_molecule_t&, const std::vector&)’: residue-circles.cc:94:46: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] } while (status == GSL_CONTINUE && iter < n_steps); ^ mv -f .deps/lbg-search.Tpo .deps/lbg-search.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT pi-stacking.lo -MD -MP -MF .deps/pi-stacking.Tpo -c -o pi-stacking.lo pi-stacking.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT pi-stacking.lo -MD -MP -MF .deps/pi-stacking.Tpo -c pi-stacking.cc -o pi-stacking.o mv -f .deps/residue-circles.Tpo .deps/residue-circles.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT flev-annotations.lo -MD -MP -MF .deps/flev-annotations.Tpo -c -o flev-annotations.lo flev-annotations.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT flev-annotations.lo -MD -MP -MF .deps/flev-annotations.Tpo -c flev-annotations.cc -o flev-annotations.o mv -f .deps/flev-annotations.Tpo .deps/flev-annotations.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -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 mv -f .deps/wmolecule.Tpo .deps/wmolecule.Plo libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -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 /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT qed-interface.lo -MD -MP -MF .deps/qed-interface.Tpo -c -o qed-interface.lo qed-interface.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT qed-interface.lo -MD -MP -MF .deps/qed-interface.Tpo -c qed-interface.cc -o qed-interface.o mv -f .deps/pi-stacking.Tpo .deps/pi-stacking.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT alerts.lo -MD -MP -MF .deps/alerts.Tpo -c -o alerts.lo alerts.cc mv -f .deps/qed-interface.Tpo .deps/qed-interface.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT alerts-list.lo -MD -MP -MF .deps/alerts-list.Tpo -c -o alerts-list.lo alerts-list.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT alerts.lo -MD -MP -MF .deps/alerts.Tpo -c alerts.cc -o alerts.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -MT alerts-list.lo -MD -MP -MF .deps/alerts-list.Tpo -c alerts-list.cc -o alerts-list.o mv -f .deps/alerts.Tpo .deps/alerts.Plo g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT lidia-main.o -MD -MP -MF .deps/lidia-main.Tpo -c -o lidia-main.o lidia-main.cc mv -f .deps/alerts-list.Tpo .deps/alerts-list.Plo g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -MT lbg-callbacks-outer.o -MD -MP -MF .deps/lbg-callbacks-outer.Tpo -c -o lbg-callbacks-outer.o lbg-callbacks-outer.cc mv -f .deps/lidia-main.Tpo .deps/lidia-main.Po mv -f .deps/lbg-callbacks-outer.Tpo .deps/lbg-callbacks-outer.Po mv -f .deps/lbg-drag-and-drop.Tpo .deps/lbg-drag-and-drop.Plo mv -f .deps/lbg.Tpo .deps/lbg.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -o libcoot-lidia.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib lbg.lo wmolecule.lo lbg-search.lo residue-circles.lo pi-stacking.lo flev-annotations.lo lbg-drag-and-drop.lo qed-interface.lo alerts.lo alerts-list.lo ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lgsl -lgslcblas -lm -L/home/paule/autobuild/Linux-ubuntu1404-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 -lpthread -ldl -lutil -lm -lpython2.7 -Xlinker -export-dynamic -ldl -lutil libtool: link: ar cru .libs/libcoot-lidia.a lbg.o wmolecule.o lbg-search.o residue-circles.o pi-stacking.o flev-annotations.o lbg-drag-and-drop.o qed-interface.o alerts.o alerts-list.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/bash ../libtool --tag=CXX --mode=link g++ -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -g -O -Wall -Wno-unused -Wl,--export-dynamic -o lidia lidia-main.o lbg-callbacks-outer.o ./libcoot-lidia.la ../coot-utils/libcoot-coord-utils.la ../geometry/libcoot-geometry.la ../mini-mol/libcoot-mini-mol.la ../utils/libcoot-utils.la ../lidia-core/libcoot-lidia-core.la -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lmmdb2 -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lgsl -lgslcblas -lm -L/home/paule/autobuild/Linux-ubuntu1404-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 -lpthread -ldl -lutil -lm -lpython2.7 -Xlinker -export-dynamic -ldl -lutil libtool: link: g++ -DPKGDATADIR=\"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot\" -g -O -Wall -Wno-unused -Wl,--export-dynamic -o lidia lidia-main.o lbg-callbacks-outer.o -Wl,-export-dynamic ./.libs/libcoot-lidia.a -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/lidia-core/.libs/libcoot-lidia-core.a ../coot-utils/.libs/libcoot-coord-utils.a ../geometry/.libs/libcoot-geometry.a ../mini-mol/.libs/libcoot-mini-mol.a ../utils/.libs/libcoot-utils.a ../lidia-core/.libs/libcoot-lidia-core.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils/.libs/libcoot-coord-utils.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/geometry/.libs/libcoot-geometry.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/mini-mol/.libs/libcoot-mini-mol.a /home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/utils/.libs/libcoot-utils.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-ccp4.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-cif.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-minimol.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-mmdb.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-cns.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-phs.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-contrib.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libclipper-core.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/librfftw.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libfftw.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libccp4c.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libmmdb2.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libgsl.so /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libgslcblas.so /home/paule/autobuild/Linux-ubuntu1404-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 /usr/lib/x86_64-linux-gnu/libcairo.so -lpango-1.0 -lfontconfig -lgobject-2.0 -lglib-2.0 /usr/lib/x86_64-linux-gnu/libfreetype.so -lpthread -lm -lpython2.7 -ldl -lutil -Wl,-rpath -Wl,/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -Wl,-rpath -Wl,/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/lbg' Making all in cootaneer make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/cootaneer' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT buccaneer-lib.lo -MD -MP -MF .deps/buccaneer-lib.Tpo -c -o buccaneer-lib.lo buccaneer-lib.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT buccaneer-prot.lo -MD -MP -MF .deps/buccaneer-prot.Tpo -c -o buccaneer-prot.lo buccaneer-prot.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT buccaneer-sequence.lo -MD -MP -MF .deps/buccaneer-sequence.Tpo -c -o buccaneer-sequence.lo buccaneer-sequence.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT cootaneer-sequence.lo -MD -MP -MF .deps/cootaneer-sequence.Tpo -c -o cootaneer-sequence.lo cootaneer-sequence.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT buccaneer-lib.lo -MD -MP -MF .deps/buccaneer-lib.Tpo -c buccaneer-lib.cpp -o buccaneer-lib.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT buccaneer-prot.lo -MD -MP -MF .deps/buccaneer-prot.Tpo -c buccaneer-prot.cpp -o buccaneer-prot.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT cootaneer-sequence.lo -MD -MP -MF .deps/cootaneer-sequence.Tpo -c cootaneer-sequence.cpp -o cootaneer-sequence.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT buccaneer-sequence.lo -MD -MP -MF .deps/buccaneer-sequence.Tpo -c buccaneer-sequence.cpp -o buccaneer-sequence.o buccaneer-lib.cpp: In member function ‘void LLK_map_target::search(clipper::Xmap&, clipper::Xmap&, clipper::Xmap&, const clipper::Xmap&, const std::vector&) const’: buccaneer-lib.cpp:219:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int op = 0; op < rtops.size(); op++ ) { ^ buccaneer-lib.cpp: In member function ‘clipper::ftype LLK_map_target::Sampled::llk(const clipper::Xmap&, const clipper::RTop_orth&) const’: buccaneer-lib.cpp:274:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < repxyz.size(); i++ ) { ^ buccaneer-lib.cpp: In member function ‘clipper::ftype LLK_map_target::Sampled::correl(const clipper::Xmap&, const clipper::RTop_orth&) const’: buccaneer-lib.cpp:285:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < repxyz.size(); i++ ) { ^ buccaneer-sequence.cpp: In static member function ‘static std::pair > Ca_sequence::sequence_score(const std::vector >&, const clipper::String&)’: buccaneer-sequence.cpp:117:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int r = 0; r < scores.size(); r++ ) { ^ buccaneer-sequence.cpp:125:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int r = 0; r < score.size(); r++ ) sccum[r+1] = sccum[r]+score[r]; ^ buccaneer-sequence.cpp:131:39: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int r1 = 0; r1 < sccum.size()-minseq; r1++ ) ^ buccaneer-sequence.cpp:132:47: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int r2 = r1+minseq; r2 < sccum.size(); r2++ ) { ^ buccaneer-sequence.cpp: In static member function ‘static Score_list Ca_sequence::sequence_match(const std::vector >&, const clipper::MMoleculeSequence&)’: buccaneer-sequence.cpp:199:38: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int j = 0; j < seqmut.size(); j++ ) { ^ buccaneer-sequence.cpp: In static member function ‘static void Ca_sequence::sequence_apply(clipper::MChain&, const clipper::String&)’: buccaneer-sequence.cpp:307:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if ( chain.size() != seq.length() ) clipper::Message::message( clipper::Message_fatal( "Sequence: internal error - length mismatch" ) ); ^ buccaneer-sequence.cpp:342:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < regions.size(); i++ ) { ^ buccaneer-sequence.cpp: In member function ‘bool Ca_sequence::operator()(clipper::MiniMol&, const clipper::MiniMol&, const clipper::Xmap&, const std::vector&, const clipper::MMoleculeSequence&)’: buccaneer-sequence.cpp:380:39: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int t = 0; t < llktarget.size(); t++ ) ^ buccaneer-sequence.cpp: In member function ‘clipper::String Ca_sequence::format() const’: buccaneer-sequence.cpp:442:41: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int chn = 0; chn < history.size(); chn++ ) { ^ buccaneer-sequence.cpp: In member function ‘void Ca_sequence::History::append(const Ca_sequence&)’: buccaneer-sequence.cpp:457:42: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < data.history.size(); i++ ) ^ buccaneer-sequence.cpp: In member function ‘clipper::String Ca_sequence::History::format(const clipper::MiniMol&) const’: buccaneer-sequence.cpp:465:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int h = 0; h < history.size(); h++ ) { ^ cootaneer-sequence.cpp: In member function ‘std::pair, double> Coot_sequence::sequence_chain(const clipper::Xmap&, const std::vector, std::basic_string > >&, mmdb::Manager&, std::string)’: cootaneer-sequence.cpp:21:38: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int c = 0; c < sequence.size(); c++ ) { ^ buccaneer-prot.cpp: In member function ‘clipper::ftype Ca_chain::ramachandran_phi(const int&) const’: buccaneer-prot.cpp:52:43: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if ( resno-1 >= 0 && resno < chain.size() ) ^ buccaneer-prot.cpp: In member function ‘clipper::ftype Ca_chain::ramachandran_psi(const int&) const’: buccaneer-prot.cpp:61:43: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if ( resno >= 0 && resno+1 < chain.size() ) ^ buccaneer-prot.cpp: In member function ‘std::vector > ProteinLoop::rebuild5atoms(clipper::Coord_orth, clipper::Coord_orth, clipper::Coord_orth, clipper::Coord_orth, clipper::Coord_orth, clipper::Coord_orth) const’: buccaneer-prot.cpp:169:44: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int ipsi1 = 0; ipsi1 < ca2s.size(); ipsi1++ ) { ^ buccaneer-prot.cpp:177:41: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int iphi2 = 0; iphi2 < cc2s.size(); iphi2++ ) { ^ buccaneer-prot.cpp: In member function ‘std::vector > ProteinLoop::rebuild8atoms(clipper::Coord_orth, clipper::Coord_orth, clipper::Coord_orth, clipper::Coord_orth, clipper::Coord_orth, clipper::Coord_orth) const’: buccaneer-prot.cpp:214:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < r5.size(); i++ ) { ^ buccaneer-prot.cpp: In static member function ‘static std::pair ProteinTools::chain_sequence_match(const clipper::String&, const clipper::MMoleculeSequence&)’: buccaneer-prot.cpp:280:57: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int res = 0; res < seq[chn].sequence().length(); res++ ) ^ buccaneer-prot.cpp:286:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < chnseq.size(); i++ ) ^ buccaneer-prot.cpp:294:38: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int chn = 0; chn < seqs.size(); chn++ ) { ^ buccaneer-prot.cpp:298:45: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < seqs[chn].length(); i++ ) ^ buccaneer-prot.cpp:299:43: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if ( i-off >= 0 && i-off < chnseq.length() ) ^ buccaneer-prot.cpp: In static member function ‘static bool ProteinTools::chain_tidy(clipper::MiniMol&, const clipper::MiniMol&)’: buccaneer-prot.cpp:364:31: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if ( chn < labels1.length() ) { ^ mv -f .deps/buccaneer-lib.Tpo .deps/buccaneer-lib.Plo mv -f .deps/cootaneer-sequence.Tpo .deps/cootaneer-sequence.Plo mv -f .deps/buccaneer-prot.Tpo .deps/buccaneer-prot.Plo mv -f .deps/buccaneer-sequence.Tpo .deps/buccaneer-sequence.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -o libcootaneer.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib buccaneer-lib.lo buccaneer-prot.lo buccaneer-sequence.lo cootaneer-sequence.lo -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/cootaneer' Making all in cootilus make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/cootilus' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT nucleicacid_db.lo -MD -MP -MF .deps/nucleicacid_db.Tpo -c -o nucleicacid_db.lo nucleicacid_db.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT nautilus-tools.lo -MD -MP -MF .deps/nautilus-tools.Tpo -c -o nautilus-tools.lo nautilus-tools.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT nautilus-ss-find.lo -MD -MP -MF .deps/nautilus-ss-find.Tpo -c -o nautilus-ss-find.lo nautilus-ss-find.cpp /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT nautilus-join.lo -MD -MP -MF .deps/nautilus-join.Tpo -c -o nautilus-join.lo nautilus-join.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT nucleicacid_db.lo -MD -MP -MF .deps/nucleicacid_db.Tpo -c nucleicacid_db.cpp -o nucleicacid_db.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT nautilus-join.lo -MD -MP -MF .deps/nautilus-join.Tpo -c nautilus-join.cpp -o nautilus-join.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT nautilus-tools.lo -MD -MP -MF .deps/nautilus-tools.Tpo -c nautilus-tools.cpp -o nautilus-tools.o libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT nautilus-ss-find.lo -MD -MP -MF .deps/nautilus-ss-find.Tpo -c nautilus-ss-find.cpp -o nautilus-ss-find.o nautilus-ss-find.cpp: In member function ‘void SSfind::prep_xmap(const clipper::Xmap&, double)’: nautilus-ss-find.cpp:19:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < mapbox.size(); i++ ) { ^ nautilus-ss-find.cpp: In member function ‘std::vector SSfind::search(const std::vector >&, const std::vector&, double, double) const’: nautilus-ss-find.cpp:59:33: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int r = 0; r < ops.size(); r++ ) { ^ nautilus-ss-find.cpp:62:41: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < target_cs.size(); i++ ) { ^ nautilus-ss-find.cpp:74:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < rslts.size(); i++ ) rslts[i].trn = srctrn[i]; ^ nautilus-ss-find.cpp:79:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < rslts.size(); i++ ) { // loop over map ^ nautilus-ss-find.cpp:86:45: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int r = 0; r < index_lists.size(); r++ ) { // loop over rotns ^ nautilus-ss-find.cpp:95:32: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if ( !( i < index_list.size() ) ) break; ^ nautilus-ss-find.cpp:110:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < rslts.size(); i++ ) ^ nucleicacid_db.cpp: In member function ‘bool NucleicAcidDB::Chain::is_continuous() const’: nucleicacid_db.cpp:448:42: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < dbmonomers.size()-1; i++ ) { ^ nucleicacid_db.cpp: In member function ‘void NucleicAcidDB::Chain::transform(const clipper::RTop_orth&)’: nucleicacid_db.cpp:462:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int r = 0; r < dbmonomers.size(); r++ ) ^ nautilus-tools.cpp: In static member function ‘static clipper::MiniMol NucleicAcidTools::flag_chains(const clipper::MiniMol&)’: nautilus-tools.cpp:66:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int r = 1; r < flag.size()-1; r++ ) ^ nautilus-tools.cpp: In static member function ‘static clipper::RTop_orth NucleicAcidTools::symmetry_rtop(const std::vector&, clipper::Coord_orth&, const clipper::Spacegroup&, const clipper::Cell&)’: nautilus-tools.cpp:81:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int a = 0; a < cowrk.size(); a++ ) ^ nautilus-tools.cpp:89:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int a = 0; a < cwrk.size(); a++ ) { ^ nautilus-tools.cpp: In static member function ‘static bool NucleicAcidTools::symm_match(clipper::MiniMol&, const clipper::MiniMol&)’: nautilus-tools.cpp:139:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < atomr.size(); i++ ) { ^ nautilus-tools.cpp:174:39: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int a = 0; a < atomw.size(); a++ ) { ^ nautilus-tools.cpp:192:38: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int a = 0; a < atomw.size(); a++ ) { ^ nautilus-join.cpp: In static member function ‘static std::vector NucleicAcidJoin::best_chain(std::vector&)’: nautilus-join.cpp:21:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < node_score.size(); i++ ) ^ nautilus-join.cpp:31:48: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int j = 0; j < nodes[node].ptrs.size(); j++ ) { ^ nautilus-join.cpp:57:40: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 1; i < node_score.size(); i++ ) ^ nautilus-join.cpp: In static member function ‘static clipper::MiniMol NucleicAcidJoin::join(const clipper::MiniMol&)’: nautilus-join.cpp:103:33: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int r = 0; r < nas.size(); r++ ) { ^ nautilus-join.cpp:114:33: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int r = 0; r < nas.size(); r++ ) equivalent[r] = r; ^ nautilus-join.cpp:128:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < atoms.size(); i++ ) { // find other equivalent NAs ^ nautilus-join.cpp:155:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int r1 = 0; r1 < nas.size()-1; r1++ ) { ^ nautilus-join.cpp:167:43: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < joins[e1].ptrs.size(); i++ ) ^ nautilus-join.cpp:194:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int r = 0; r < chn.size(); r++ ) ^ nautilus-join.cpp:197:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int f = 0; f < joins.size(); f++ ) ^ nautilus-join.cpp:201:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int f = 0; f < joins.size(); f++ ) ^ nautilus-join.cpp:216:34: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int c = 0; c < chns.size(); c++ ) { ^ nautilus-join.cpp:220:39: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int r = 0; r < chns[c].size(); r++ ) { ^ mv -f .deps/nautilus-ss-find.Tpo .deps/nautilus-ss-find.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT nautilus-target.lo -MD -MP -MF .deps/nautilus-target.Tpo -c -o nautilus-target.lo nautilus-target.cpp libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT nautilus-target.lo -MD -MP -MF .deps/nautilus-target.Tpo -c nautilus-target.cpp -o nautilus-target.o mv -f .deps/nautilus-tools.Tpo .deps/nautilus-tools.Plo /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT cootilus-build.lo -MD -MP -MF .deps/cootilus-build.Tpo -c -o cootilus-build.lo cootilus-build.cpp mv -f .deps/nucleicacid_db.Tpo .deps/nucleicacid_db.Plo nautilus-target.cpp: In member function ‘double NucleicAcidTarget::radius() const’: nautilus-target.cpp:48:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < target_.size(); i++ ) { ^ nautilus-target.cpp:53:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int a = 0; a < coords.size(); a++ ) { ^ nautilus-target.cpp: In member function ‘float NucleicAcidTarget::score_min(const clipper::Xmap&, const clipper::RTop_orth&) const’: nautilus-target.cpp:65:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < target_.size(); i++ ) { ^ nautilus-target.cpp: In member function ‘float NucleicAcidTarget::score_sum(const clipper::Xmap&, const clipper::RTop_orth&) const’: nautilus-target.cpp:77:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < target_.size(); i++ ) { ^ libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT cootilus-build.lo -MD -MP -MF .deps/cootilus-build.Tpo -c cootilus-build.cpp -o cootilus-build.o nautilus-target.cpp: In member function ‘const clipper::MiniMol NucleicAcidTargets::find(const clipper::Xmap&, const clipper::MiniMol&, int, int, double)’: nautilus-target.cpp:452:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < found_s.size(); i++ ) { ^ nautilus-target.cpp:458:37: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < found_p.size(); i++ ) { ^ nautilus-target.cpp: In member function ‘const clipper::MiniMol NucleicAcidTargets::prune(const clipper::MiniMol&) const’: nautilus-target.cpp:577:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < atoms.size(); i++ ) { ^ nautilus-target.cpp: In member function ‘const clipper::MiniMol NucleicAcidTargets::rebuild_bases(const clipper::Xmap&, const clipper::MiniMol&) const’: nautilus-target.cpp:718:38: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for ( int i = 0; i < atoms.size(); i++ ) { ^ 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/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -o libcootilus.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib nucleicacid_db.lo nautilus-tools.lo nautilus-ss-find.lo nautilus-join.lo nautilus-target.lo cootilus-build.lo -L/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib -lclipper-ccp4 -lclipper-cif -lclipper-minimol -lclipper-mmdb -lclipper-cns -lclipper-phs -lclipper-contrib -lclipper-core -lccp4c -lmmdb2 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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/cootilus' Making all in goograph make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/goograph' /bin/bash ../libtool --tag=CXX --mode=compile g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT goograph.lo -MD -MP -MF .deps/goograph.Tpo -c -o goograph.lo goograph.cc libtool: compile: g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" "-DPACKAGE_STRING=\"coot 0.8.2\"" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -g -O -Wall -Wno-unused -MT goograph.lo -MD -MP -MF .deps/goograph.Tpo -c goograph.cc -o goograph.o mv -f .deps/goograph.Tpo .deps/goograph.Plo /bin/bash ../libtool --tag=CXX --mode=link g++ -g -O -Wall -Wno-unused -o libcoot-goograph.la -rpath /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib goograph.lo ../lidia-core/libcoot-lidia-core.la ../utils/libcoot-utils.la -L/home/paule/autobuild/Linux-ubuntu1404-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: 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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/goograph' Making all in pyrogen make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pyrogen' make[1]: Nothing to be done for `all'. make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pyrogen' Making all in src make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/src' g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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 g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -MT fix-nomenclature.o -MD -MP -MF .deps/fix-nomenclature.Tpo -c -o fix-nomenclature.o fix-nomenclature.cc g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -MT coot-nomenclature.o -MD -MP -MF .deps/coot-nomenclature.Tpo -c -o coot-nomenclature.o coot-nomenclature.cc g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -MT main.o -MD -MP -MF .deps/main.Tpo -c -o main.o main.cc mv -f .deps/fix-nomenclature.Tpo .deps/fix-nomenclature.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -MT atom-overlaps.o -MD -MP -MF .deps/atom-overlaps.Tpo -c -o atom-overlaps.o atom-overlaps.cc mv -f .deps/density-score-by-residue-src.Tpo .deps/density-score-by-residue-src.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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/git-revision-count.Tpo .deps/git-revision-count.Po gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -g -O2 -Wall -Wunused -MT c-inner-main.o -MD -MP -MF .deps/c-inner-main.Tpo -c -o c-inner-main.o c-inner-main.c main.cc: In function ‘int main(int, char**)’: main.cc:200:7: warning: ‘void g_type_init()’ is deprecated (declared at /usr/include/glib-2.0/gobject/gtype.h:667) [-Wdeprecated-declarations] g_type_init(); // for lbg command-line mode, so that ^ main.cc:200:19: warning: ‘void g_type_init()’ is deprecated (declared at /usr/include/glib-2.0/gobject/gtype.h:667) [-Wdeprecated-declarations] g_type_init(); // for lbg command-line mode, so that ^ mv -f .deps/coot-nomenclature.Tpo .deps/coot-nomenclature.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -MT c-interface-analysis.o -MD -MP -MF .deps/c-interface-analysis.Tpo -c -o c-interface-analysis.o c-interface-analysis.cc mv -f .deps/c-inner-main.Tpo .deps/c-inner-main.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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/main.Tpo .deps/main.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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 mv -f .deps/atom-overlaps.Tpo .deps/atom-overlaps.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK 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c-interface-gtk2.cc mv -f .deps/c-interface-build-gui.Tpo .deps/c-interface-build-gui.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz 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-pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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-maps.Tpo .deps/c-interface-maps.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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-ligands.Tpo .deps/c-interface-ligands.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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-mmdb.Tpo .deps/c-interface-mmdb.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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-mogul.Tpo .deps/c-interface-mogul.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" 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-pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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-mutate.Tpo .deps/c-interface-mutate.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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-ncs.Tpo .deps/c-interface-ncs.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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-network.Tpo .deps/c-interface-network.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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-nucleotides.Tpo .deps/c-interface-nucleotides.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -MT c-interface-preferences.o -MD -MP -MF .deps/c-interface-preferences.Tpo -c -o c-interface-preferences.o c-interface-preferences.cc c-interface-preferences.cc: In function ‘int preferences_internal_font_own_colour_flag()’: c-interface-preferences.cc:1552:48: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i=0; istd::vector<_Tp, _Alloc>::operator[] >(((std::vector::size_type)i)).coot::generic_display_object_t::lines_set.std::vector<_Tp, _Alloc>::operator[] >(((std::vector::size_type)ils)).coot::generic_display_line_set_t::colour.coot::colour_holder::red) * 8.0000000000000004e-1)’ from ‘double’ to ‘GLfloat {aka float}’ inside { } is ill-formed in C++11 [-Wnarrowing] GLfloat mat_diffuse[] = {(*generic_objects_p)[i].lines_set[ils].colour.red * 0.8, ^ graphics-info.cc:4521:60: warning: narrowing conversion of ‘(((double)graphics_info_t::generic_objects_p->std::vector<_Tp, _Alloc>::operator[] >(((std::vector::size_type)i)).coot::generic_display_object_t::lines_set.std::vector<_Tp, _Alloc>::operator[] >(((std::vector::size_type)ils)).coot::generic_display_line_set_t::colour.coot::colour_holder::green) * 8.0000000000000004e-1)’ from ‘double’ to ‘GLfloat {aka float}’ inside { } is ill-formed in C++11 [-Wnarrowing] (*generic_objects_p)[i].lines_set[ils].colour.green * 0.8, ^ graphics-info.cc:4522:60: warning: narrowing conversion of ‘(((double)graphics_info_t::generic_objects_p->std::vector<_Tp, _Alloc>::operator[] >(((std::vector::size_type)i)).coot::generic_display_object_t::lines_set.std::vector<_Tp, _Alloc>::operator[] >(((std::vector::size_type)ils)).coot::generic_display_line_set_t::colour.coot::colour_holder::blue) * 8.0000000000000004e-1)’ from ‘double’ to ‘GLfloat {aka float}’ inside { } is ill-formed in C++11 [-Wnarrowing] (*generic_objects_p)[i].lines_set[ils].colour.blue * 0.8, ^ graphics-info.cc:4666:58: warning: narrowing conversion of ‘(((double)obj.coot::generic_display_object_t::arcs.std::vector<_Tp, _Alloc>::operator[] >(((std::vector::size_type)iarc)).coot::generic_display_object_t::arc_t::col.coot::colour_t::col.std::vector<_Tp, _Alloc>::operator[] >(0ul)) * 8.0000000000000004e-1)’ from ‘double’ to ‘GLfloat {aka float}’ inside { } is ill-formed in C++11 [-Wnarrowing] GLfloat mat_diffuse[] = {obj.arcs[iarc].col.col[0] * 0.8, ^ graphics-info.cc:4667:37: warning: narrowing conversion of ‘(((double)obj.coot::generic_display_object_t::arcs.std::vector<_Tp, _Alloc>::operator[] >(((std::vector::size_type)iarc)).coot::generic_display_object_t::arc_t::col.coot::colour_t::col.std::vector<_Tp, _Alloc>::operator[] >(1ul)) * 8.0000000000000004e-1)’ from ‘double’ to ‘GLfloat {aka float}’ inside { } is ill-formed in C++11 [-Wnarrowing] obj.arcs[iarc].col.col[1] * 0.8, ^ graphics-info.cc:4668:37: warning: narrowing conversion of ‘(((double)obj.coot::generic_display_object_t::arcs.std::vector<_Tp, _Alloc>::operator[] >(((std::vector::size_type)iarc)).coot::generic_display_object_t::arc_t::col.coot::colour_t::col.std::vector<_Tp, _Alloc>::operator[] >(2ul)) * 8.0000000000000004e-1)’ from ‘double’ to ‘GLfloat {aka float}’ inside { } is ill-formed in C++11 [-Wnarrowing] obj.arcs[iarc].col.col[2] * 0.8, ^ mv -f .deps/globjects.Tpo .deps/globjects.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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/globularize.Tpo .deps/globularize.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz 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-I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -MT graphics-info-navigation.o -MD -MP -MF .deps/graphics-info-navigation.Tpo -c -o graphics-info-navigation.o graphics-info-navigation.cc graphics-info-modelling.cc: In member function ‘void graphics_info_t::check_and_warn_inverted_chirals_and_cis_peptides() const’: graphics-info-modelling.cc:4121:35: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if (n_cis > graphics_info_t::moving_atoms_n_cis_peptides) { ^ mv -f .deps/graphics-info-gui.Tpo .deps/graphics-info-gui.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 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-I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -MT gtk-manual.o -MD -MP -MF .deps/gtk-manual.Tpo -c -o gtk-manual.o gtk-manual.cc mv -f .deps/graphics-info-state.Tpo .deps/graphics-info-state.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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/gtk-widget-conversion-utils.Tpo .deps/gtk-widget-conversion-utils.Po gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-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/graphics-ligand-view.Tpo .deps/graphics-ligand-view.Po gcc -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -g -O2 -Wall -Wunused -MT interface.o -MD -MP -MF .deps/interface.Tpo -c -o interface.o interface.c mv -f .deps/graphics-info-superpose.Tpo .deps/graphics-info-superpose.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -MT lbg-callbacks-outer.o -MD -MP -MF .deps/lbg-callbacks-outer.Tpo -c -o lbg-callbacks-outer.o lbg-callbacks-outer.cc mv -f .deps/gtk-manual.Tpo .deps/gtk-manual.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -MT lbg-interface.o -MD -MP -MF .deps/lbg-interface.Tpo -c -o lbg-interface.o lbg-interface.cc mv -f .deps/interface.Tpo .deps/interface.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -MT molecule-class-info.o -MD -MP -MF .deps/molecule-class-info.Tpo -c -o molecule-class-info.o molecule-class-info.cc gtk2-interface.c: In function ‘create_coot_references_dialog’: gtk2-interface.c:26695:15: 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:27892:7: warning: ‘gdk_pixbuf_unref’ is deprecated (declared at /usr/include/gdk-pixbuf-2.0/gdk-pixbuf/gdk-pixbuf-core.h:226): Use 'g_object_unref' instead [-Wdeprecated-declarations] gdk_pixbuf_unref (multi_residue_torsion_dialog_icon_pixbuf); ^ mv -f .deps/lbg-callbacks-outer.Tpo .deps/lbg-callbacks-outer.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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 molecule-class-info.cc: In member function ‘int molecule_class_info_t::add_additional_representation(int, const int&, float, bool, const coot::atom_selection_info_t&, GtkWidget*, const gl_context_info_t&, const coot::protein_geometry*)’: molecule-class-info.cc:2422:99: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if ((display_list_handle_index >= 0) && (display_list_handle_index < display_list_tags.size())) { ^ molecule-class-info.cc: In member function ‘void molecule_class_info_t::clear_additional_representation(int)’: molecule-class-info.cc:2446:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if (add_reps.size() > representation_number) { ^ molecule-class-info.cc: In member function ‘void molecule_class_info_t::set_show_additional_representation(int, bool)’: molecule-class-info.cc:2457:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if (add_reps.size() > representation_number) { ^ molecule-class-info.cc: In member function ‘void molecule_class_info_t::set_show_all_additional_representations(bool)’: molecule-class-info.cc:2473:29: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (unsigned int i=0; i= 0) && (handle < display_list_tags.size())) ^ mv -f .deps/lbg-interface.Tpo .deps/lbg-interface.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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 molecule-class-info-maps.cc: In member function ‘void molecule_class_info_t::setup_density_surface_material(bool, float, bool)’: molecule-class-info-maps.cc:719:37: warning: narrowing conversion of ‘((*(*((molecule_class_info_t*)this)->molecule_class_info_t::map_colour)) * 2.9999999999999999e-1)’ from ‘double’ to ‘GLfloat {aka float}’ inside { } is ill-formed in C++11 [-Wnarrowing] GLfloat mat_ambient[] = {.3*map_colour[0][0], 0.3*map_colour[0][1], 0.3*map_colour[0][2], opacity}; ^ molecule-class-info-maps.cc:719:59: warning: narrowing conversion of ‘((*((*((molecule_class_info_t*)this)->molecule_class_info_t::map_colour) + 8u)) * 2.9999999999999999e-1)’ from ‘double’ to ‘GLfloat {aka float}’ inside { } is ill-formed in C++11 [-Wnarrowing] GLfloat mat_ambient[] = {.3*map_colour[0][0], 0.3*map_colour[0][1], 0.3*map_colour[0][2], opacity}; ^ molecule-class-info-maps.cc:719:81: warning: narrowing conversion of ‘((*((*((molecule_class_info_t*)this)->molecule_class_info_t::map_colour) + 16u)) * 2.9999999999999999e-1)’ from ‘double’ to ‘GLfloat {aka float}’ inside { } is ill-formed in C++11 [-Wnarrowing] GLfloat mat_ambient[] = {.3*map_colour[0][0], 0.3*map_colour[0][1], 0.3*map_colour[0][2], opacity}; ^ molecule-class-info-maps.cc:720:50: warning: narrowing conversion of ‘*(*((molecule_class_info_t*)this)->molecule_class_info_t::map_colour)’ from ‘double’ to ‘GLfloat {aka float}’ inside { } is ill-formed in C++11 [-Wnarrowing] GLfloat mat_diffuse[] = {map_colour[0][0], map_colour[0][1], map_colour[0][2], opacity}; ^ molecule-class-info-maps.cc:720:68: warning: narrowing conversion of ‘*((*((molecule_class_info_t*)this)->molecule_class_info_t::map_colour) + 8u)’ from ‘double’ to ‘GLfloat {aka float}’ inside { } is ill-formed in C++11 [-Wnarrowing] GLfloat mat_diffuse[] = {map_colour[0][0], map_colour[0][1], map_colour[0][2], opacity}; ^ molecule-class-info-maps.cc:720:86: warning: narrowing conversion of ‘*((*((molecule_class_info_t*)this)->molecule_class_info_t::map_colour) + 16u)’ from ‘double’ to ‘GLfloat {aka float}’ inside { } is ill-formed in C++11 [-Wnarrowing] GLfloat mat_diffuse[] = {map_colour[0][0], map_colour[0][1], map_colour[0][2], opacity}; ^ molecule-class-info-maps.cc:731:33: warning: narrowing conversion of ‘((*(*(((molecule_class_info_t*)this)->molecule_class_info_t::map_colour + 8u))) * 2.9999999999999999e-1)’ from ‘double’ to ‘GLfloat {aka float}’ inside { } is ill-formed in C++11 [-Wnarrowing] GLfloat mat_ambient[] = {.3*map_colour[1][0], 0.3*map_colour[1][1], 0.3*map_colour[1][2], opacity}; ^ molecule-class-info-maps.cc:731:55: warning: narrowing conversion of ‘((*((*(((molecule_class_info_t*)this)->molecule_class_info_t::map_colour + 8u)) + 8u)) * 2.9999999999999999e-1)’ from ‘double’ to ‘GLfloat {aka float}’ inside { } is ill-formed in C++11 [-Wnarrowing] GLfloat mat_ambient[] = {.3*map_colour[1][0], 0.3*map_colour[1][1], 0.3*map_colour[1][2], opacity}; ^ molecule-class-info-maps.cc:731:77: warning: narrowing conversion of ‘((*((*(((molecule_class_info_t*)this)->molecule_class_info_t::map_colour + 8u)) + 16u)) * 2.9999999999999999e-1)’ from ‘double’ to ‘GLfloat {aka float}’ inside { } is ill-formed in C++11 [-Wnarrowing] GLfloat mat_ambient[] = {.3*map_colour[1][0], 0.3*map_colour[1][1], 0.3*map_colour[1][2], opacity}; ^ molecule-class-info-maps.cc:732:46: warning: narrowing conversion of ‘*(*(((molecule_class_info_t*)this)->molecule_class_info_t::map_colour + 8u))’ from ‘double’ to ‘GLfloat {aka float}’ inside { } is ill-formed in C++11 [-Wnarrowing] GLfloat mat_diffuse[] = {map_colour[1][0], map_colour[1][1], map_colour[1][2], opacity}; ^ molecule-class-info-maps.cc:732:64: warning: narrowing conversion of ‘*((*(((molecule_class_info_t*)this)->molecule_class_info_t::map_colour + 8u)) + 8u)’ from ‘double’ to ‘GLfloat {aka float}’ inside { } is ill-formed in C++11 [-Wnarrowing] GLfloat mat_diffuse[] = {map_colour[1][0], map_colour[1][1], map_colour[1][2], opacity}; ^ molecule-class-info-maps.cc:732:82: warning: narrowing conversion of ‘*((*(((molecule_class_info_t*)this)->molecule_class_info_t::map_colour + 8u)) + 16u)’ from ‘double’ to ‘GLfloat {aka float}’ inside { } is ill-formed in C++11 [-Wnarrowing] GLfloat mat_diffuse[] = {map_colour[1][0], map_colour[1][1], map_colour[1][2], opacity}; ^ mv -f .deps/molecule-class-info-maps-2.Tpo .deps/molecule-class-info-maps-2.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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/gtk2-interface.Tpo .deps/gtk2-interface.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK 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-I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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.Tpo .deps/molecule-class-info.Po g++ -DPACKAGE_NAME=\"coot\" -DPACKAGE_TARNAME=\"coot\" -DPACKAGE_VERSION=\"0.8.2\" -DPACKAGE_STRING=\"coot\ 0.8.2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE=\"coot\" -DVERSION=\"0.8.2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DHAVE_OPENMP=1 -DHAVE_PYTHON=\"2.7\" -I. -I.. -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DHAVE_GNOME_CANVAS -pthread -I/usr/include/libgnomecanvas-2.0 -I/usr/include/pango-1.0 -I/usr/include/gail-1.0 -I/usr/include/libart-2.0 -I/usr/include/gtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/atk-1.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/pixman-1 -I/usr/include/libpng12 -DCOOT_USE_GTK2_INTERFACE -pthread -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/gtkglext-1.0 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/gtkglext-1.0/include -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/gtk-2.0/include -I/usr/include/pango-1.0 -I/usr/include/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/cairo -I/usr/include/gdk-pixbuf-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/atk-1.0 -I/usr/include/harfbuzz -DHAVE_GOOCANVAS -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/goocanvas-1.0 -pthread -I/usr/include/gtk-2.0 -I/usr/lib/x86_64-linux-gnu/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/gio-unix-2.0/ -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/libpng12 -I/usr/include/harfbuzz -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DHAVE_SSMLIB -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/pygtk-2.0 -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -DUSE_SQLITE3 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -DPKGDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot"' -DPACKAGE_LOCALE_DIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/locale"' -DPKGPYTHONDIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot"' -DDATADIR='"/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share"' -DCOOT_SYS_BUILD_TYPE='"Linux-x86_64-ubuntu-14.04-python-gtk2"' -DCOOT_BUILD_INFO_STRING='"build-host: ubuntu1404 on: Mon 31 Aug 1607.06 BST 2015"' -DUSE_LIBCURL -DHAVE_SYS_STDTYPES_H=0 -DUSE_GUILE -DUSE_GUILE_GTK -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include -P -pthread -DUSE_PYTHON -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -I/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/python2.7 -DUSE_PYGTK -DHAVE_GSL -g -O -Wall -Wno-unused -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 molecule-class-info-other.cc: In member function ‘std::vector > coot::dots_representation_info_t::solvent_exposure(int, mmdb::Manager*) const’: molecule-class-info-other.cc:118:36: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (unsigned int iat=0; iat molecule_class_info_t::backrub_rotamer(const string&, int, const string&, const string&, const coot::protein_geometry&)’: molecule-class-info-other.cc:2093:54: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if (imol_map < graphics_info_t::molecules.size()) { ^ molecule-class-info-other.cc: In constructor ‘coot::goto_residue_string_info_t::goto_residue_string_info_t(const string&, mmdb::Manager*)’: molecule-class-info-other.cc:2452:23: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i=0; i > > molecule_class_info_t::merge_molecules(const std::vector&)’: molecule-class-info-other.cc:5088:51: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for (int i=0; i cootrc make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2' 1 --------------------------------------------------------------- make install 1 ---------------------------------------------------------------- Making install in auxil make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil' Making install in catcheck make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/catcheck' make[3]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/catcheck' make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/catcheck' Making install in rama make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/rama' make[3]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/rama' make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/rama' Making install in sec-str make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/sec-str' make[3]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/sec-str' make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/sec-str' Making install in strand-analysis make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/strand-analysis' make[3]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/strand-analysis' make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/strand-analysis' Making install in vectors make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/vectors' make[3]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/vectors' make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil/vectors' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil' make[3]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil' make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/auxil' Making install in scheme make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/scheme' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/scheme' make[2]: Nothing to be done for `install-exec-am'. test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/scheme" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/scheme" /usr/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 '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/scheme' /usr/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 prodrg-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 dictionary-generators.scm '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/scheme' make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/scheme' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/scheme' Making install in python make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/python' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/python' make[2]: Nothing to be done for `install-exec-am'. test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot" /usr/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 prodrg_import.py gui_hole.py gui_prosmart.py get_recent_pdbe.py jligand.py jligand_gui.py '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot' /usr/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 enhanced_ligand.py dictionary_generators.py coot_toolbuttons.py rcrane_loader.py pdbe_validation_data.py '/home/paule/autobuild/Linux-ubuntu1404-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.pyprodrg_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.pyenhanced_ligand.pydictionary_generators.pycoot_toolbuttons.pyrcrane_loader.pypdbe_validation_data.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.pyprodrg_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.pyenhanced_ligand.pydictionary_generators.pycoot_toolbuttons.pyrcrane_loader.pypdbe_validation_data.py make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/python' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/python' Making install in pdb-templates make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pdb-templates' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pdb-templates' make[2]: Nothing to be done for `install-exec-am'. test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot" /usr/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-pyranose-core-ALPHA1-6.tab link-by-torsion-to-pyranose-core-ALPHA2-3.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-NAG-ASN.tab NAG-decorations.tab BMA-decorations.tab MAN-decorations.tab GLC-decorations.tab GAL-decorations.tab FUC-decorations.tab theor-helix-70.pdb '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot' make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pdb-templates' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pdb-templates' Making install in macros make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/macros' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/macros' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/macros' Making install in compat make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/compat' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/compat' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/compat" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/compat" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-compat.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/bin/install -c -m 644 coot-getopt.h '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/compat' libtool: install: /usr/bin/install -c .libs/libcoot-compat.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-compat.la libtool: install: /usr/bin/install -c .libs/libcoot-compat.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-compat.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-compat.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-compat.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/compat' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/compat' Making install in utils make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/utils' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/utils' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/utils" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/utils" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-utils.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/bin/install -c -m 644 coot-utils.hh coot-fasta.hh '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/utils' libtool: install: /usr/bin/install -c .libs/libcoot-utils.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-utils.la libtool: install: /usr/bin/install -c .libs/libcoot-utils.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-utils.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-utils.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-utils.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/utils' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/utils' Making install in protein_db make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/protein_db' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/protein_db' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/protein_db" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/protein_db" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/protein_db" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/protein_db" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-protein-db.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/bin/install -c -m 644 protein.db '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/protein_db' /usr/bin/install -c -m 644 protein_db.h protein_db_utils.h rna_db.h '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/protein_db' libtool: install: /usr/bin/install -c .libs/libcoot-protein-db.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-protein-db.la libtool: install: /usr/bin/install -c .libs/libcoot-protein-db.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-protein-db.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-protein-db.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-protein-db.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/protein_db' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/protein_db' Making install in mini-mol make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/mini-mol' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/mini-mol' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/mini-mol" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/mini-mol" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-mini-mol.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/bin/install -c -m 644 mini-mol.hh mini-mol-utils.hh atom-quads.hh '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/mini-mol' libtool: install: /usr/bin/install -c .libs/libcoot-mini-mol.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-mini-mol.la libtool: install: /usr/bin/install -c .libs/libcoot-mini-mol.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-mini-mol.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-mini-mol.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-mini-mol.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/mini-mol' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/mini-mol' Making install in geometry make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/geometry' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/geometry' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/geometry" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/geometry" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-geometry.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/bin/install -c -m 644 protein-geometry.hh read-sbase.hh lbg-graph.hh srs-interface.hh dict-mismatches.hh hb-types.hh '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/geometry' libtool: install: /usr/bin/install -c .libs/libcoot-geometry.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-geometry.la libtool: install: /usr/bin/install -c .libs/libcoot-geometry.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-geometry.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-geometry.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-geometry.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin" /bin/bash ../libtool --mode=install /usr/bin/install -c coot.compare-dictionaries coot.make-shelx-restraints coot.dictionary-bond-distributions coot.available-comp-id '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin' libtool: install: /usr/bin/install -c coot.compare-dictionaries /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin/coot.compare-dictionaries libtool: install: /usr/bin/install -c coot.make-shelx-restraints /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin/coot.make-shelx-restraints libtool: install: /usr/bin/install -c coot.dictionary-bond-distributions /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin/coot.dictionary-bond-distributions libtool: install: /usr/bin/install -c coot.available-comp-id /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin/coot.available-comp-id make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/geometry' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/geometry' Making install in coot-utils make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/coot-utils" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/coot-utils" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-coord-utils.la libcoot-shelx.la libcoot-coord-extras.la libcoot-map-utils.la libcoot-map-heavy.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/bin/install -c -m 644 peak-search.hh coot-trim.hh residue-and-atom-specs.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 '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/coot-utils' libtool: install: /usr/bin/install -c .libs/libcoot-coord-utils.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-coord-utils.la libtool: install: /usr/bin/install -c .libs/libcoot-shelx.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-shelx.la libtool: install: /usr/bin/install -c .libs/libcoot-coord-extras.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-coord-extras.la libtool: install: /usr/bin/install -c .libs/libcoot-map-utils.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-map-utils.la libtool: install: /usr/bin/install -c .libs/libcoot-map-heavy.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-map-heavy.la libtool: install: /usr/bin/install -c .libs/libcoot-coord-utils.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-coord-utils.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-coord-utils.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-coord-utils.a libtool: install: /usr/bin/install -c .libs/libcoot-shelx.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-shelx.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-shelx.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-shelx.a libtool: install: /usr/bin/install -c .libs/libcoot-coord-extras.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-coord-extras.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-coord-extras.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-coord-extras.a libtool: install: /usr/bin/install -c .libs/libcoot-map-utils.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-map-utils.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-map-utils.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-map-utils.a libtool: install: /usr/bin/install -c .libs/libcoot-map-heavy.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-map-heavy.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-map-heavy.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-map-heavy.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-utils' Making install in surface make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/surface' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/surface' make[2]: Nothing to be done for `install-data-am'. test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" /bin/bash ../libtool --mode=install /usr/bin/install -c libccp4mg-surface.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' libtool: install: /usr/bin/install -c .libs/libccp4mg-surface.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libccp4mg-surface.la libtool: install: /usr/bin/install -c .libs/libccp4mg-surface.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libccp4mg-surface.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libccp4mg-surface.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libccp4mg-surface.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/surface' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/surface' Making install in coot-surface make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-surface' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-surface' make[2]: Nothing to be done for `install-data-am'. test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-surface.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' libtool: install: /usr/bin/install -c .libs/libcoot-surface.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-surface.la libtool: install: /usr/bin/install -c .libs/libcoot-surface.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-surface.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-surface.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-surface.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-surface' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coot-surface' Making install in lidia-core make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/lidia-core' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/lidia-core' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/lidia-core" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/lidia-core" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-lidia-core.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/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 '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/lidia-core' libtool: install: /usr/bin/install -c .libs/libcoot-lidia-core.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-lidia-core.la libtool: install: /usr/bin/install -c .libs/libcoot-lidia-core.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-lidia-core.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-lidia-core.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-lidia-core.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/lidia-core' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/lidia-core' Making install in coords make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coords' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coords' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/coords" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/coords" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-coords.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/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 '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/coords' libtool: install: /usr/bin/install -c .libs/libcoot-coords.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-coords.la libtool: install: /usr/bin/install -c .libs/libcoot-coords.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-coords.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-coords.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-coords.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coords' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/coords' Making install in angles make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/angles' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/angles' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/angles" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/angles" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-AngleInfo.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/bin/install -c -m 644 AngleInfo.h ncube.h wrapped-ncube.h '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/angles' libtool: install: /usr/bin/install -c .libs/libcoot-AngleInfo.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-AngleInfo.la libtool: install: /usr/bin/install -c .libs/libcoot-AngleInfo.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-AngleInfo.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-AngleInfo.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-AngleInfo.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/angles' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/angles' Making install in skeleton make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/skeleton' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/skeleton' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/skeleton" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/skeleton" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-skeleton.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/bin/install -c -m 644 graphical_skel.h dm-utils.h BuildCas.h '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/skeleton' libtool: install: /usr/bin/install -c .libs/libcoot-skeleton.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-skeleton.la libtool: install: /usr/bin/install -c .libs/libcoot-skeleton.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-skeleton.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-skeleton.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-skeleton.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/skeleton' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/skeleton' Making install in ccp4mg-utils make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ccp4mg-utils' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ccp4mg-utils' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/ccp4mg-utils" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/ccp4mg-utils" /bin/bash ../libtool --mode=install /usr/bin/install -c libccp4mg-utils.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/bin/install -c -m 644 geomutil.h mgtree.h cartesian.h matrix.h quat.h ppmutil.h '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/ccp4mg-utils' libtool: install: /usr/bin/install -c .libs/libccp4mg-utils.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libccp4mg-utils.la libtool: install: /usr/bin/install -c .libs/libccp4mg-utils.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libccp4mg-utils.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libccp4mg-utils.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libccp4mg-utils.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ccp4mg-utils' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ccp4mg-utils' Making install in density-contour make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/density-contour' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/density-contour' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/density-contour" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/density-contour" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-isosurface.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/bin/install -c -m 644 Vectors.h CIsoSurface.h density-contour-triangles.hh '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/density-contour' libtool: install: /usr/bin/install -c .libs/libcoot-isosurface.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-isosurface.la libtool: install: /usr/bin/install -c .libs/libcoot-isosurface.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-isosurface.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-isosurface.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-isosurface.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/density-contour' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/density-contour' Making install in db-main make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/db-main' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/db-main' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/db-main" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/db-main" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-db-main.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/bin/install -c -m 644 db-main.hh db-strands.hh '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/db-main' libtool: install: /usr/bin/install -c .libs/libcoot-db-main.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-db-main.la libtool: install: /usr/bin/install -c .libs/libcoot-db-main.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-db-main.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-db-main.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-db-main.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/db-main' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/db-main' Making install in ideal make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ideal' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ideal' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/ideal" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/ideal" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-ideal.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/bin/install -c -m 644 test-indexing.hh simple-restraint.hh pepflip.hh regularize-minimol.hh lograma.h parallel-planes.hh torsion-bonds.hh '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/ideal' libtool: install: /usr/bin/install -c .libs/libcoot-ideal.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-ideal.la libtool: install: /usr/bin/install -c .libs/libcoot-ideal.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-ideal.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-ideal.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-ideal.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin" /bin/bash ../libtool --mode=install /usr/bin/install -c mini-rsr '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin' libtool: install: /usr/bin/install -c mini-rsr /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin/mini-rsr make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ideal' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ideal' Making install in ligand make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ligand' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ligand' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/ligand" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/ligand" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-ligand.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/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 '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/ligand' /usr/bin/install -c findwaters findligand '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin' libtool: install: /usr/bin/install -c .libs/libcoot-ligand.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-ligand.la libtool: install: /usr/bin/install -c .libs/libcoot-ligand.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-ligand.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-ligand.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-ligand.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin" /bin/bash ../libtool --mode=install /usr/bin/install -c findligand-real findwaters-real '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin' libtool: install: /usr/bin/install -c findligand-real /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin/findligand-real libtool: install: /usr/bin/install -c findwaters-real /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin/findwaters-real make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ligand' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/ligand' Making install in high-res make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/high-res' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/high-res' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/high-res" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/high-res" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-high-res.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/bin/install -c -m 644 high-res.hh coot-atom-graph.hh coot-node-info.hh sequence-assignment.hh '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/high-res' libtool: install: /usr/bin/install -c .libs/libcoot-high-res.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-high-res.la libtool: install: /usr/bin/install -c .libs/libcoot-high-res.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-high-res.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-high-res.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-high-res.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/high-res' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/high-res' Making install in build make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/build' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/build' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/build" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/build" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-cabuild.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/bin/install -c -m 644 CalphaBuild.hh '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/build' libtool: install: /usr/bin/install -c .libs/libcoot-cabuild.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-cabuild.la libtool: install: /usr/bin/install -c .libs/libcoot-cabuild.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-cabuild.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-cabuild.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-cabuild.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/build' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/build' Making install in greg-tests make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/greg-tests' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/greg-tests' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/greg-tests' Making install in python-tests make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/python-tests' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/python-tests' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/python-tests' Making install in analysis make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/analysis' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/analysis' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/analysis" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/analysis" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-analysis.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/bin/install -c -m 644 bfkurt.hh mogul-interface.hh stats.hh '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/analysis' libtool: install: /usr/bin/install -c .libs/libcoot-analysis.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-analysis.la libtool: install: /usr/bin/install -c .libs/libcoot-analysis.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-analysis.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-analysis.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-analysis.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin" /bin/bash ../libtool --mode=install /usr/bin/install -c bfactan '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin' libtool: install: /usr/bin/install -c bfactan /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin/bfactan make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/analysis' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/analysis' Making install in tw make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/tw' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/tw' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/tw" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/tw" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-tw.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/bin/install -c -m 644 coot-tw.hh '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/tw' libtool: install: /usr/bin/install -c .libs/libcoot-tw.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-tw.la libtool: install: /usr/bin/install -c .libs/libcoot-tw.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-tw.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-tw.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-tw.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/tw' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/tw' Making install in libgtkgraph make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/libgtkgraph' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/libgtkgraph' make[2]: Nothing to be done for `install-data-am'. test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-gtkgraph.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' libtool: install: /usr/bin/install -c .libs/libcoot-gtkgraph.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-gtkgraph.la libtool: install: /usr/bin/install -c .libs/libcoot-gtkgraph.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-gtkgraph.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-gtkgraph.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-gtkgraph.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/libgtkgraph' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/libgtkgraph' Making install in lbg make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/lbg' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/lbg' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/pixmaps" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/pixmaps" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/lbg" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/lbg" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-lidia.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/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 '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/pixmaps' /usr/bin/install -c -m 644 lbg.hh wmolecule.hh flev-annotations.hh graphics-c-interface-functions.hh lbg-drag-and-drop.hh qed-interface.hh alerts.hh pi-stacking.hh '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot/lbg' /usr/bin/install -c -m 644 lbg.glade lbg-callbacks.cc '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot' libtool: install: /usr/bin/install -c .libs/libcoot-lidia.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-lidia.la libtool: install: /usr/bin/install -c .libs/libcoot-lidia.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-lidia.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-lidia.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-lidia.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin" /bin/bash ../libtool --mode=install /usr/bin/install -c lidia '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin' libtool: install: /usr/bin/install -c lidia /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin/lidia make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/lbg' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/lbg' Making install in cootaneer make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/cootaneer' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/cootaneer' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot" /bin/bash ../libtool --mode=install /usr/bin/install -c libcootaneer.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/bin/install -c -m 644 cootaneer-llk-2.40.dat '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot' libtool: install: /usr/bin/install -c .libs/libcootaneer.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcootaneer.la libtool: install: /usr/bin/install -c .libs/libcootaneer.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcootaneer.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcootaneer.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcootaneer.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/cootaneer' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/cootaneer' Making install in cootilus make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/cootilus' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/cootilus' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot" /bin/bash ../libtool --mode=install /usr/bin/install -c libcootilus.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' /usr/bin/install -c -m 644 nautilus_lib.pdb '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot' libtool: install: /usr/bin/install -c .libs/libcootilus.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcootilus.la libtool: install: /usr/bin/install -c .libs/libcootilus.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcootilus.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcootilus.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcootilus.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/cootilus' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/cootilus' Making install in goograph make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/goograph' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/goograph' make[2]: Nothing to be done for `install-data-am'. test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" /bin/bash ../libtool --mode=install /usr/bin/install -c libcoot-goograph.la '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib' libtool: install: /usr/bin/install -c .libs/libcoot-goograph.lai /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-goograph.la libtool: install: /usr/bin/install -c .libs/libcoot-goograph.a /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-goograph.a libtool: install: chmod 644 /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-goograph.a libtool: install: ranlib /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/libcoot-goograph.a libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu1404-pre-release-gtk2/bin:/home/paule/bin:/home/paule/ccp4/ccp4-6.3.0/share/dbccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/share/ccp4i/bin:/home/paule/ccp4/ccp4-6.3.0/bin:/home/paule/ccp4/ccp4-6.3.0/etc:/home/paule/bin.Linux:/home/paule/gqview/bin:/home/paule/gdb/bin:/home/paule/bin:/home/paule/tools/bin:/sbin:/usr/sbin:/home/paule/molprobity:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2core//Test:/home/paule/ccp4/ccp4-6.3.0/share/xia2/xia2//Applications:/usr/local/bin:/usr/sbin:/usr/bsd:/sbin:/usr/bin:/bin::/etc:/usr/etc:/sbin" ldconfig -n /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib If you ever happen to want to link against installed libraries in a given directory, LIBDIR, you must either use libtool, and specify the full pathname of the library, or use the `-LLIBDIR' flag during linking and do at least one of the following: - add LIBDIR to the `LD_LIBRARY_PATH' environment variable during execution - add LIBDIR to the `LD_RUN_PATH' environment variable during linking - use the `-Wl,-rpath -Wl,LIBDIR' linker flag - have your system administrator add LIBDIR to `/etc/ld.so.conf' See any operating system documentation about shared libraries for more information, such as the ld(1) and ld.so(8) manual pages. ---------------------------------------------------------------------- make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/goograph' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/goograph' Making install in pyrogen make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pyrogen' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pyrogen' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot" make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pyrogen' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pyrogen' Making install in src make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/src' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/src' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/libexec" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/libexec" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages" /usr/bin/install -c coot density-score-by-residue '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin' /bin/bash ../libtool --mode=install /usr/bin/install -c density-score-by-residue-real fix-nomenclature-errors '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin' test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot" /usr/bin/install -c coot.py coot.pth '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages' n/libexec' /usr/bin/install -c -m 644 crunch-model.hh '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/include/coot' libtool: install: /usr/bin/install -c density-score-by-residue-real /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin/density-score-by-residue-real libtool: install: /usr/bin/install -c coot-bin /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/libexec/coot-bin libtool: install: /usr/bin/install -c fix-nomenclature-errors /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/bin/fix-nomenclature-errors make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/src' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/src' Making install in data make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/data' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/data' make[2]: Nothing to be done for `install-exec-am'. test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/data" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/data" /usr/bin/install -c -m 644 tutorial-modern.pdb rnasa-1.8-all_refmac1.mtz ligands.db '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/data' make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/data' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/data' Making install in rama-data make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/rama-data' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/rama-data' make[2]: Nothing to be done for `install-exec-am'. test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/rama-data" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/rama-data" /usr/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 '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/rama-data' make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/rama-data' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/rama-data' Making install in doc make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/doc' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/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 `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/doc' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/doc' Making install in rcrane make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/rcrane' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/rcrane' make[2]: Nothing to be done for `install-exec-am'. test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot/rcrane" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot/rcrane" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot/rcrane/data" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot/rcrane/data" /usr/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 '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot/rcrane' /usr/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 '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot/rcrane/data' /usr/bin/install -c -m 644 preLaunchCheck.py safelog.py extendChain.py reportInputErrors.py '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/lib/python2.7/site-packages/coot/rcrane' make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/rcrane' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/rcrane' Making install in pixmaps make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pixmaps' Making install in icons make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pixmaps/icons' make[3]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/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 $icon | cut -d_ -f4`; \ mkdir -p /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/icons/$THEME/$SIZE/$CONTEXT; \ /usr/bin/install -c -m 644 ./$icon /home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/icons/$THEME/$SIZE/$CONTEXT/$ICONFILE; \ done; make[3]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pixmaps/icons' make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pixmaps/icons' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pixmaps' make[3]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pixmaps' make[3]: Nothing to be done for `install-exec-am'. test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/pixmaps" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/pixmaps" /usr/bin/install -c -m 644 coot-0.8.2.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 '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/pixmaps' /usr/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 chiral.png go-to-ligand.svg rtz.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 kevin-orig.jpg smiles.png '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/pixmaps' /usr/bin/install -c -m 644 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 pointer-distances.png water-drop.svg '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/pixmaps' /usr/bin/install -c -m 644 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 '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot/pixmaps' make[3]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pixmaps' make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pixmaps' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2/pixmaps' make[1]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2' make[2]: Entering directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2' make[2]: Nothing to be done for `install-exec-am'. test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/appdata" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/appdata" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/applications" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/applications" test -z "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot" || /bin/mkdir -p "/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot" /usr/bin/install -c -m 644 coot.appdata.xml '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/appdata' /usr/bin/install -c -m 644 coot.desktop '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/applications' /usr/bin/install -c -m 644 cootrc standard-residues.pdb colours.def mtrix-to-ncs-matrix.awk syminfo.lib '/home/paule/autobuild/Linux-ubuntu1404-gtk2-python/share/coot' make[2]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu1404_2015-08-31__T14_57_15/coot-0.8.2'