+ case "${usergroup_phase}" in + local run_cmd + run_cmd=run_su + shift + run_su /opt/pkg/bin/bmake all BATCH=1 DEPENDS_TARGET=/nonexistent WRKLOG=/tmp/bulklog/openbabel-3.1.1nb11/work.log + su pbulk -c '"$@"' make /opt/pkg/bin/bmake all BATCH=1 DEPENDS_TARGET=/nonexistent WRKLOG=/tmp/bulklog/openbabel-3.1.1nb11/work.log => Bootstrap dependency digest>=20211023: found digest-20220214 ===> Building for openbabel-3.1.1nb11 [ 1%] Building CXX object src/CMakeFiles/openbabel.dir/alias.cpp.o [ 1%] Building CXX object src/CMakeFiles/openbabel.dir/atom.cpp.o [ 1%] Building CXX object src/CMakeFiles/openbabel.dir/base.cpp.o [ 1%] Building CXX object src/CMakeFiles/openbabel.dir/bitvec.cpp.o [ 1%] Building CXX object src/CMakeFiles/openbabel.dir/bond.cpp.o [ 2%] Building CXX object src/CMakeFiles/openbabel.dir/bondtyper.cpp.o [ 2%] Building CXX object src/CMakeFiles/openbabel.dir/builder.cpp.o [ 2%] Building CXX object src/CMakeFiles/openbabel.dir/canon.cpp.o [ 2%] Building CXX object 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src/CMakeFiles/openbabel.dir/stereo/stereo.cpp.o [ 13%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/tetranonplanar.cpp.o [ 13%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/tetraplanar.cpp.o [ 13%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/squareplanar.cpp.o [ 13%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/cistrans.cpp.o [ 13%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/tetrahedral.cpp.o [ 14%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/perception.cpp.o /home/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/perception.cpp: In function 'void OpenBabel::StereoRefToImplicit(OpenBabel::OBMol&, OpenBabel::OBStereo::Ref)': /home/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/perception.cpp:2973:16: warning: 'template class std::binder1st' is deprecated [-Wdeprecated-declarations] 2973 | const std::binder1st > equal_to_atomId = std::bind1st (equal_to(), atomId); | ^~~~~~~~~ In file included from /opt/tools/gcc10/include/c++/10.3.0/bits/stl_function.h:1392, from /opt/tools/gcc10/include/c++/10.3.0/bits/stl_tree.h:65, from /opt/tools/gcc10/include/c++/10.3.0/map:60, from /home/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/base.h:26, from /home/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/stereo/stereo.h:27, from /home/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/stereo/tetranonplanar.h:27, from /home/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/stereo/tetrahedral.h:27, from /home/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/perception.cpp:26: /opt/tools/gcc10/include/c++/10.3.0/backward/binders.h:108:11: note: declared here 108 | class binder1st | ^~~~~~~~~ /home/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/perception.cpp: In function 'void OpenBabel::ImplicitRefToStereo(OpenBabel::OBMol&, OpenBabel::OBStereo::Ref, OpenBabel::OBStereo::Ref)': /home/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/perception.cpp:3005:16: warning: 'template class std::binder1st' is deprecated [-Wdeprecated-declarations] 3005 | const std::binder1st > equal_to_implicitRef = std::bind1st (equal_to(), (OBStereo::Ref) OBStereo::ImplicitRef); | ^~~~~~~~~ In file included from /opt/tools/gcc10/include/c++/10.3.0/bits/stl_function.h:1392, from /opt/tools/gcc10/include/c++/10.3.0/bits/stl_tree.h:65, from /opt/tools/gcc10/include/c++/10.3.0/map:60, from /home/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/base.h:26, from /home/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/stereo/stereo.h:27, from /home/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/stereo/tetranonplanar.h:27, from /home/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/include/openbabel/stereo/tetrahedral.h:27, from /home/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/stereo/perception.cpp:26: /opt/tools/gcc10/include/c++/10.3.0/backward/binders.h:108:11: note: declared here 108 | class binder1st | ^~~~~~~~~ [ 14%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/facade.cpp.o [ 14%] Building CXX object src/CMakeFiles/openbabel.dir/stereo/gen3dstereohelper.cpp.o [ 14%] Linking CXX shared library ../lib/libopenbabel.so [ 14%] Built target openbabel [ 14%] Building CXX object src/CMakeFiles/plugin_descriptors.dir/descriptors/cansmidescriptor.cpp.o [ 14%] Building CXX object src/CMakeFiles/plugin_descriptors.dir/descriptors/cmpdfilter.cpp.o [ 14%] Building CXX object src/CMakeFiles/plugin_descriptors.dir/descriptors/groupcontrib.cpp.o [ 14%] Building CXX object src/CMakeFiles/plugin_descriptors.dir/descriptors/filters.cpp.o [ 15%] Building CXX object 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orcaformat [ 53%] Building CXX object src/formats/CMakeFiles/APIInterface.dir/APIInterface.cpp.o [ 53%] Linking CXX shared module ../../lib/APIInterface.so [ 53%] Built target APIInterface [ 53%] Building CXX object src/formats/CMakeFiles/CSRformat.dir/CSRformat.cpp.o /home/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/CSRformat.cpp: In member function 'char* OpenBabel::CSRFormat::PadString(char*, int)': /home/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/CSRformat.cpp:192:12: warning: 'char* std::strncpy(char*, const char*, size_t)' specified bound depends on the length of the source argument [-Wstringop-overflow=] 192 | strncpy(output, input, strlen(input)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 53%] Linking CXX shared module ../../lib/CSRformat.so [ 53%] Built target CSRformat [ 53%] Building CXX object src/formats/CMakeFiles/PQSformat.dir/PQSformat.cpp.o [ 53%] Linking CXX shared module ../../lib/PQSformat.so [ 53%] Built target PQSformat [ 53%] Building CXX object src/formats/CMakeFiles/MCDLformat.dir/MCDLformat.cpp.o [ 54%] Linking CXX shared module ../../lib/MCDLformat.so [ 54%] Built target MCDLformat [ 54%] Building CXX object src/formats/CMakeFiles/alchemyformat.dir/alchemyformat.cpp.o [ 54%] Linking CXX shared module ../../lib/alchemyformat.so [ 54%] Built target alchemyformat [ 54%] Building CXX object src/formats/CMakeFiles/acrformat.dir/acrformat.cpp.o [ 55%] Linking CXX shared module ../../lib/acrformat.so [ 55%] Built target acrformat [ 55%] Building CXX object src/formats/CMakeFiles/amberformat.dir/amberformat.cpp.o [ 56%] Linking CXX shared module ../../lib/amberformat.so [ 56%] Built target amberformat [ 56%] Building CXX object src/formats/CMakeFiles/balstformat.dir/balstformat.cpp.o [ 56%] Linking CXX shared module ../../lib/balstformat.so [ 56%] Built target balstformat [ 56%] Building CXX object src/formats/CMakeFiles/bgfformat.dir/bgfformat.cpp.o [ 56%] Linking CXX shared module ../../lib/bgfformat.so [ 56%] Built target bgfformat [ 57%] Building CXX object src/formats/CMakeFiles/boxformat.dir/boxformat.cpp.o [ 57%] Linking CXX shared module ../../lib/boxformat.so [ 57%] Built target boxformat [ 57%] Building CXX object src/formats/CMakeFiles/cacaoformat.dir/cacaoformat.cpp.o [ 57%] Linking CXX shared module ../../lib/cacaoformat.so [ 57%] Built target cacaoformat [ 57%] Building CXX object src/formats/CMakeFiles/cacheformat.dir/cacheformat.cpp.o {standard input}: Assembler messages: {standard input}: Fatal error: can't write 1 byte to section .text._ZN9OpenBabel8OBPlugin4InitEv of CMakeFiles/cacheformat.dir/cacheformat.cpp.o: 'Disc quota exceeded' /home/pbulk/build/biology/openbabel/work/openbabel-openbabel-3-1-1/src/formats/cacheformat.cpp:175:1: fatal error: opening dependency file CMakeFiles/cacheformat.dir/cacheformat.cpp.o.d: Disc quota exceeded 175 | } //namespace OpenBabel | ^ compilation terminated. *** [src/formats/CMakeFiles/cacheformat.dir/cacheformat.cpp.o] Error code 1 bmake[2]: stopped in /home/pbulk/build/biology/openbabel/work/build 1 error bmake[2]: stopped in /home/pbulk/build/biology/openbabel/work/build *** [src/formats/CMakeFiles/cacheformat.dir/all] Error code 2 bmake[1]: stopped in /home/pbulk/build/biology/openbabel/work/build 1 error bmake[1]: stopped in /home/pbulk/build/biology/openbabel/work/build *** [all] Error code 2 bmake: stopped in /home/pbulk/build/biology/openbabel/work/build 1 error bmake: stopped in /home/pbulk/build/biology/openbabel/work/build *** Error code 2 Stop. bmake[1]: stopped in /data/jenkins/workspace/pkgsrc-upstream-trunk/biology/openbabel *** Error code 1 Stop. bmake: stopped in /data/jenkins/workspace/pkgsrc-upstream-trunk/biology/openbabel