Fri Aug 5 12:13:10 BST 2016 gzip -dc /home/paule/autobuild/building/sources/mmdb2-2.0.11.tar.gz /home/paule/autobuild/building/ubuntu-server_2016-08-05__T11_13_02/mmdb2-2.0.11 checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes /home/paule/autobuild/building/ubuntu-server_2016-08-05__T11_13_02/mmdb2-2.0.11/build-aux/missing: Unknown `--is-lightweight' option Try `/home/paule/autobuild/building/ubuntu-server_2016-08-05__T11_13_02/mmdb2-2.0.11/build-aux/missing --help' for more information configure: WARNING: 'missing' script is too old or missing checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... gawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for style of include used by make... 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(cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether to enable maintainer-specific portions of Makefiles... no checking for library containing cos... -lm checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating mmdb2.pc config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands make all-am make[1]: Entering directory `/home/paule/autobuild/building/ubuntu-server_2016-08-05__T11_13_02/mmdb2-2.0.11' depbase=`echo mmdb2/hybrid_36.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -g -O2 -MT mmdb2/hybrid_36.lo -MD -MP -MF $depbase.Tpo -c -o mmdb2/hybrid_36.lo mmdb2/hybrid_36.cpp &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++ -DHAVE_CONFIG_H -I. -g -O2 -MT mmdb2/hybrid_36.lo -MD -MP -MF mmdb2/.deps/hybrid_36.Tpo 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mmdb2/mmdb_math_fft.lo -MD -MP -MF $depbase.Tpo -c -o mmdb2/mmdb_math_fft.lo mmdb2/mmdb_math_fft.cpp &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++ -DHAVE_CONFIG_H -I. -g -O2 -MT mmdb2/mmdb_math_fft.lo -MD -MP -MF mmdb2/.deps/mmdb_math_fft.Tpo -c mmdb2/mmdb_math_fft.cpp -fPIC -DPIC -o mmdb2/.libs/mmdb_math_fft.o depbase=`echo mmdb2/mmdb_selmngr.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -g -O2 -MT mmdb2/mmdb_selmngr.lo -MD -MP -MF $depbase.Tpo -c -o mmdb2/mmdb_selmngr.lo mmdb2/mmdb_selmngr.cpp &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++ -DHAVE_CONFIG_H -I. -g -O2 -MT mmdb2/mmdb_selmngr.lo -MD -MP -MF mmdb2/.deps/mmdb_selmngr.Tpo -c mmdb2/mmdb_selmngr.cpp -fPIC -DPIC -o mmdb2/.libs/mmdb_selmngr.o depbase=`echo mmdb2/mmdb_io_file.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -g -O2 -MT mmdb2/mmdb_io_file.lo -MD -MP -MF $depbase.Tpo -c -o mmdb2/mmdb_io_file.lo mmdb2/mmdb_io_file.cpp &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++ -DHAVE_CONFIG_H -I. -g -O2 -MT mmdb2/mmdb_io_file.lo -MD -MP -MF mmdb2/.deps/mmdb_io_file.Tpo -c mmdb2/mmdb_io_file.cpp -fPIC -DPIC -o mmdb2/.libs/mmdb_io_file.o mmdb2/mmdb_io_file.cpp: In member function 'void mmdb::io::File::truncate(long int)': mmdb2/mmdb_io_file.cpp:266:32: warning: ignoring return value of 'int truncate(const char*, __off_t)', declared with attribute warn_unused_result [-Wunused-result] depbase=`echo mmdb2/mmdb_math_graph.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -g -O2 -MT mmdb2/mmdb_math_graph.lo -MD -MP -MF $depbase.Tpo -c -o mmdb2/mmdb_math_graph.lo mmdb2/mmdb_math_graph.cpp &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++ -DHAVE_CONFIG_H -I. -g -O2 -MT mmdb2/mmdb_math_graph.lo -MD -MP -MF mmdb2/.deps/mmdb_math_graph.Tpo -c mmdb2/mmdb_math_graph.cpp -fPIC -DPIC -o mmdb2/.libs/mmdb_math_graph.o depbase=`echo mmdb2/mmdb_seqsuperpose.lo | sed 's|[^/]*$|.deps/&|;s|\.lo$||'`;\ /bin/bash ./libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -g -O2 -MT mmdb2/mmdb_seqsuperpose.lo -MD -MP -MF $depbase.Tpo -c -o mmdb2/mmdb_seqsuperpose.lo mmdb2/mmdb_seqsuperpose.cpp &&\ mv -f $depbase.Tpo $depbase.Plo libtool: compile: g++ -DHAVE_CONFIG_H -I. -g -O2 -MT mmdb2/mmdb_seqsuperpose.lo -MD -MP -MF mmdb2/.deps/mmdb_seqsuperpose.Tpo -c mmdb2/mmdb_seqsuperpose.cpp -fPIC -DPIC -o mmdb2/.libs/mmdb_seqsuperpose.o /bin/bash ./libtool --tag=CXX --mode=link g++ -g -O2 -no-undefined -o mmdb2/libmmdb2.la -rpath /home/paule/autobuild/Linux-ubuntu-server-pre-release-gtk2-python/lib mmdb2/hybrid_36.lo mmdb2/mmdb_io_stream.lo mmdb2/mmdb_math_linalg.lo mmdb2/mmdb_symop.lo mmdb2/mmdb_atom.lo mmdb2/mmdb_machine_.lo mmdb2/mmdb_math_rand.lo mmdb2/mmdb_tables.lo mmdb2/mmdb_bondmngr.lo mmdb2/mmdb_manager.lo mmdb2/mmdb_mattype.lo mmdb2/mmdb_title.lo mmdb2/mmdb_chain.lo mmdb2/mmdb_mask.lo mmdb2/mmdb_mmcif_.lo mmdb2/mmdb_uddata.lo mmdb2/mmdb_cifdefs.lo mmdb2/mmdb_math_.lo mmdb2/mmdb_model.lo mmdb2/mmdb_utils.lo mmdb2/mmdb_coormngr.lo mmdb2/mmdb_math_align.lo mmdb2/mmdb_root.lo mmdb2/mmdb_xml_.lo mmdb2/mmdb_cryst.lo mmdb2/mmdb_math_bfgsmin.lo mmdb2/mmdb_rwbrook.lo mmdb2/mmdb_ficif.lo mmdb2/mmdb_math_fft.lo mmdb2/mmdb_selmngr.lo mmdb2/mmdb_io_file.lo mmdb2/mmdb_math_graph.lo mmdb2/mmdb_seqsuperpose.lo -lm libtool: link: g++ -fPIC -DPIC -shared -nostdlib /usr/lib/gcc/x86_64-linux-gnu/4.6/../../../x86_64-linux-gnu/crti.o /usr/lib/gcc/x86_64-linux-gnu/4.6/crtbeginS.o mmdb2/.libs/hybrid_36.o mmdb2/.libs/mmdb_io_stream.o mmdb2/.libs/mmdb_math_linalg.o mmdb2/.libs/mmdb_symop.o mmdb2/.libs/mmdb_atom.o mmdb2/.libs/mmdb_machine_.o mmdb2/.libs/mmdb_math_rand.o mmdb2/.libs/mmdb_tables.o mmdb2/.libs/mmdb_bondmngr.o mmdb2/.libs/mmdb_manager.o mmdb2/.libs/mmdb_mattype.o mmdb2/.libs/mmdb_title.o mmdb2/.libs/mmdb_chain.o mmdb2/.libs/mmdb_mask.o mmdb2/.libs/mmdb_mmcif_.o mmdb2/.libs/mmdb_uddata.o mmdb2/.libs/mmdb_cifdefs.o mmdb2/.libs/mmdb_math_.o mmdb2/.libs/mmdb_model.o mmdb2/.libs/mmdb_utils.o mmdb2/.libs/mmdb_coormngr.o mmdb2/.libs/mmdb_math_align.o mmdb2/.libs/mmdb_root.o mmdb2/.libs/mmdb_xml_.o mmdb2/.libs/mmdb_cryst.o mmdb2/.libs/mmdb_math_bfgsmin.o mmdb2/.libs/mmdb_rwbrook.o mmdb2/.libs/mmdb_ficif.o mmdb2/.libs/mmdb_math_fft.o mmdb2/.libs/mmdb_selmngr.o mmdb2/.libs/mmdb_io_file.o mmdb2/.libs/mmdb_math_graph.o mmdb2/.libs/mmdb_seqsuperpose.o -L/usr/lib/gcc/x86_64-linux-gnu/4.6 -L/usr/lib/gcc/x86_64-linux-gnu/4.6/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/4.6/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/4.6/../../.. -lstdc++ -lm -lc -lgcc_s /usr/lib/gcc/x86_64-linux-gnu/4.6/crtendS.o /usr/lib/gcc/x86_64-linux-gnu/4.6/../../../x86_64-linux-gnu/crtn.o -O2 -Wl,-soname -Wl,libmmdb2.so.0 -o mmdb2/.libs/libmmdb2.so.0.0.0 libtool: link: (cd "mmdb2/.libs" && rm -f "libmmdb2.so.0" && ln -s "libmmdb2.so.0.0.0" "libmmdb2.so.0") libtool: link: (cd "mmdb2/.libs" && rm -f "libmmdb2.so" && ln -s "libmmdb2.so.0.0.0" "libmmdb2.so") libtool: link: ( cd "mmdb2/.libs" && rm -f "libmmdb2.la" && ln -s "../libmmdb2.la" "libmmdb2.la" ) make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu-server_2016-08-05__T11_13_02/mmdb2-2.0.11' make[1]: Entering directory `/home/paule/autobuild/building/ubuntu-server_2016-08-05__T11_13_02/mmdb2-2.0.11' /bin/mkdir -p '/home/paule/autobuild/Linux-ubuntu-server-pre-release-gtk2-python/lib' /bin/bash ./libtool --mode=install /usr/bin/install -c mmdb2/libmmdb2.la '/home/paule/autobuild/Linux-ubuntu-server-pre-release-gtk2-python/lib' libtool: install: /usr/bin/install -c mmdb2/.libs/libmmdb2.so.0.0.0 /home/paule/autobuild/Linux-ubuntu-server-pre-release-gtk2-python/lib/libmmdb2.so.0.0.0 libtool: install: (cd /home/paule/autobuild/Linux-ubuntu-server-pre-release-gtk2-python/lib && { ln -s -f libmmdb2.so.0.0.0 libmmdb2.so.0 || { rm -f libmmdb2.so.0 && ln -s libmmdb2.so.0.0.0 libmmdb2.so.0; }; }) libtool: install: (cd /home/paule/autobuild/Linux-ubuntu-server-pre-release-gtk2-python/lib && { ln -s -f libmmdb2.so.0.0.0 libmmdb2.so || { rm -f libmmdb2.so && ln -s libmmdb2.so.0.0.0 libmmdb2.so; }; }) libtool: install: /usr/bin/install -c mmdb2/.libs/libmmdb2.lai /home/paule/autobuild/Linux-ubuntu-server-pre-release-gtk2-python/lib/libmmdb2.la libtool: finish: PATH="/home/paule/autobuild/Linux-ubuntu-server-pre-release-gtk2-python/bin:/home/paule/autobuild/Linux-ubuntu-server-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:/usr/bin:/bin:/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-ubuntu-server-pre-release-gtk2-python/lib ---------------------------------------------------------------------- Libraries have been installed in: /home/paule/autobuild/Linux-ubuntu-server-pre-release-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. ---------------------------------------------------------------------- /bin/mkdir -p '/home/paule/autobuild/Linux-ubuntu-server-pre-release-gtk2-python/lib/pkgconfig' /usr/bin/install -c -m 644 mmdb2.pc '/home/paule/autobuild/Linux-ubuntu-server-pre-release-gtk2-python/lib/pkgconfig' /bin/mkdir -p '/home/paule/autobuild/Linux-ubuntu-server-pre-release-gtk2-python/include/mmdb2' /usr/bin/install -c -m 644 mmdb2/hybrid_36.h mmdb2/mmdb_io_file.h mmdb2/mmdb_math_graph.h mmdb2/mmdb_seqsuperpose.h mmdb2/mmdb_atom.h mmdb2/mmdb_io_stream.h mmdb2/mmdb_math_linalg.h mmdb2/mmdb_symop.h mmdb2/mmdb_bondmngr.h mmdb2/mmdb_machine_.h mmdb2/mmdb_math_rand.h mmdb2/mmdb_tables.h mmdb2/mmdb_chain.h mmdb2/mmdb_manager.h mmdb2/mmdb_mattype.h mmdb2/mmdb_title.h mmdb2/mmdb_cifdefs.h mmdb2/mmdb_mask.h mmdb2/mmdb_mmcif_.h mmdb2/mmdb_uddata.h mmdb2/mmdb_coormngr.h mmdb2/mmdb_math_.h mmdb2/mmdb_model.h mmdb2/mmdb_utils.h mmdb2/mmdb_cryst.h mmdb2/mmdb_math_align.h mmdb2/mmdb_root.h mmdb2/mmdb_xml_.h mmdb2/mmdb_defs.h mmdb2/mmdb_math_bfgsmin.h mmdb2/mmdb_rwbrook.h mmdb2/mmdb_ficif.h mmdb2/mmdb_math_fft.h mmdb2/mmdb_selmngr.h '/home/paule/autobuild/Linux-ubuntu-server-pre-release-gtk2-python/include/mmdb2' make[1]: Leaving directory `/home/paule/autobuild/building/ubuntu-server_2016-08-05__T11_13_02/mmdb2-2.0.11'