Source: openstructure Version: 2.2.0-1 Severity: serious Justification: FTBFS on arm64 Tags: bullseye sid ftbfs Usertags: ftbfs-20201205 ftbfs-bullseye
Hi, During a rebuild of all packages in sid, your package failed to build on arm64 (I don't know if it also fails on amd64). Relevant part (hopefully): > [ 93%] Building CXX object > modules/io/tests/CMakeFiles/ost_io_tests.dir/test_star_parser.cc.o > cd /<<PKGBUILDDIR>>/obj-aarch64-linux-gnu/modules/io/tests && /usr/bin/c++ > -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB > -I/<<PKGBUILDDIR>>/obj-aarch64-linux-gnu/stage/include -I/usr/include/eigen3 > -isystem /usr/include/aarch64-linux-gnu/qt5 -isystem > /usr/include/aarch64-linux-gnu/qt5/QtXml -isystem > /usr/include/aarch64-linux-gnu/qt5/QtCore -isystem > /usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -isystem > /usr/include/aarch64-linux-gnu/qt5/QtGui -isystem > /usr/include/aarch64-linux-gnu/qt5/QtWidgets -g -O2 > -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat > -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes > -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_star_parser.cc.o -c > /<<PKGBUILDDIR>>/modules/io/tests/test_star_parser.cc > [ 93%] Building CXX object > modules/io/tests/CMakeFiles/ost_io_tests.dir/test_mmcif_reader.cc.o > cd /<<PKGBUILDDIR>>/obj-aarch64-linux-gnu/modules/io/tests && /usr/bin/c++ > -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB > -I/<<PKGBUILDDIR>>/obj-aarch64-linux-gnu/stage/include -I/usr/include/eigen3 > -isystem /usr/include/aarch64-linux-gnu/qt5 -isystem > /usr/include/aarch64-linux-gnu/qt5/QtXml -isystem > /usr/include/aarch64-linux-gnu/qt5/QtCore -isystem > /usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -isystem > /usr/include/aarch64-linux-gnu/qt5/QtGui -isystem > /usr/include/aarch64-linux-gnu/qt5/QtWidgets -g -O2 > -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat > -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes > -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_mmcif_reader.cc.o -c > /<<PKGBUILDDIR>>/modules/io/tests/test_mmcif_reader.cc > [ 94%] Building CXX object > modules/io/tests/CMakeFiles/ost_io_tests.dir/test_mmcif_info.cc.o > cd /<<PKGBUILDDIR>>/obj-aarch64-linux-gnu/modules/io/tests && /usr/bin/c++ > -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB > -I/<<PKGBUILDDIR>>/obj-aarch64-linux-gnu/stage/include -I/usr/include/eigen3 > -isystem /usr/include/aarch64-linux-gnu/qt5 -isystem > /usr/include/aarch64-linux-gnu/qt5/QtXml -isystem > /usr/include/aarch64-linux-gnu/qt5/QtCore -isystem > /usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -isystem > /usr/include/aarch64-linux-gnu/qt5/QtGui -isystem > /usr/include/aarch64-linux-gnu/qt5/QtWidgets -g -O2 > -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat > -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes > -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_mmcif_info.cc.o -c > /<<PKGBUILDDIR>>/modules/io/tests/test_mmcif_info.cc > [ 94%] Building CXX object > modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_img.cc.o > cd /<<PKGBUILDDIR>>/obj-aarch64-linux-gnu/modules/io/tests && /usr/bin/c++ > -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB > -I/<<PKGBUILDDIR>>/obj-aarch64-linux-gnu/stage/include -I/usr/include/eigen3 > -isystem /usr/include/aarch64-linux-gnu/qt5 -isystem > /usr/include/aarch64-linux-gnu/qt5/QtXml -isystem > /usr/include/aarch64-linux-gnu/qt5/QtCore -isystem > /usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -isystem > /usr/include/aarch64-linux-gnu/qt5/QtGui -isystem > /usr/include/aarch64-linux-gnu/qt5/QtWidgets -g -O2 > -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat > -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes > -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_io_img.cc.o -c > /<<PKGBUILDDIR>>/modules/io/tests/test_io_img.cc > [ 94%] Building CXX object > modules/io/tests/CMakeFiles/ost_io_tests.dir/test_exceptions.cc.o > cd /<<PKGBUILDDIR>>/obj-aarch64-linux-gnu/modules/io/tests && /usr/bin/c++ > -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB > -I/<<PKGBUILDDIR>>/obj-aarch64-linux-gnu/stage/include -I/usr/include/eigen3 > -isystem /usr/include/aarch64-linux-gnu/qt5 -isystem > /usr/include/aarch64-linux-gnu/qt5/QtXml -isystem > /usr/include/aarch64-linux-gnu/qt5/QtCore -isystem > /usr/lib/aarch64-linux-gnu/qt5/mkspecs/linux-g++ -isystem > /usr/include/aarch64-linux-gnu/qt5/QtGui -isystem > /usr/include/aarch64-linux-gnu/qt5/QtWidgets -g -O2 > -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat > -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes > -g -fPIC -o CMakeFiles/ost_io_tests.dir/test_exceptions.cc.o -c > /<<PKGBUILDDIR>>/modules/io/tests/test_exceptions.cc > [ 94%] Linking CXX executable ../../../tests/ost_io_tests > cd /<<PKGBUILDDIR>>/obj-aarch64-linux-gnu/modules/io/tests && /usr/bin/cmake > -E cmake_link_script CMakeFiles/ost_io_tests.dir/link.txt --verbose=1 > /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. > -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time > -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes -g -Wl,-z,relro > CMakeFiles/ost_io_tests.dir/test_clustal.cc.o > CMakeFiles/ost_io_tests.dir/test_io_pdb.cc.o > CMakeFiles/ost_io_tests.dir/test_io_crd.cc.o > CMakeFiles/ost_io_tests.dir/test_io_dcd.cc.o > CMakeFiles/ost_io_tests.dir/test_io_sdf.cc.o > CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o > CMakeFiles/ost_io_tests.dir/test_pir.cc.o > CMakeFiles/ost_io_tests.dir/test_iomanager.cc.o > CMakeFiles/ost_io_tests.dir/tests.cc.o > CMakeFiles/ost_io_tests.dir/test_star_parser.cc.o > CMakeFiles/ost_io_tests.dir/test_mmcif_reader.cc.o > CMakeFiles/ost_io_tests.dir/test_mmcif_info.cc.o > CMakeFiles/ost_io_tests.dir/test_io_img.cc.o > CMakeFiles/ost_io_tests.dir/test_exceptions.cc.o -o > ../../../tests/ost_io_tests > -L/<<PKGBUILDDIR>>/obj-aarch64-linux-gnu/stage/lib > -Wl,-rpath,/<<PKGBUILDDIR>>/obj-aarch64-linux-gnu/stage/lib > /usr/lib/aarch64-linux-gnu/libboost_unit_test_framework.so > ../../../stage/lib/libost_io.so.2.2.0 > ../../../stage/lib/libost_mol_alg.so.2.2.0 > ../../../stage/lib/libost_conop.so.2.2.0 > ../../../stage/lib/libost_db.so.2.2.0 > /usr/lib/aarch64-linux-gnu/libsqlite3.so > /usr/lib/aarch64-linux-gnu/libboost_program_options.so > /usr/lib/aarch64-linux-gnu/libboost_thread.so -lpthread > /usr/lib/aarch64-linux-gnu/libboost_chrono.so > /usr/lib/aarch64-linux-gnu/libboost_date_time.so > /usr/lib/aarch64-linux-gnu/libboost_atomic.so > ../../../stage/lib/libost_seq_alg.so.2.2.0 > ../../../stage/lib/libost_seq.so.2.2.0 ../../../stage/lib/libost_mol.so.2.2.0 > ../../../stage/lib/libost_img_alg.so.2.2.0 > ../../../stage/lib/libost_img.so.2.2.0 > ../../../stage/lib/libost_info.so.2.2.0 > ../../../stage/lib/libost_base.so.2.2.0 > ../../../stage/lib/libost_geom.so.2.2.0 > /usr/lib/aarch64-linux-gnu/libboost_filesystem.so > /usr/lib/aarch64-linux-gnu/libboost_system.so > /usr/lib/aarch64-linux-gnu/libQt5Xml.so.5.15.1 > /usr/lib/aarch64-linux-gnu/libQt5Widgets.so.5.15.1 > /usr/lib/aarch64-linux-gnu/libQt5Gui.so.5.15.1 > /usr/lib/aarch64-linux-gnu/libQt5Core.so.5.15.1 > /usr/lib/aarch64-linux-gnu/libfftw3f.so > /usr/lib/aarch64-linux-gnu/libfftw3f_threads.so > /usr/lib/aarch64-linux-gnu/libboost_iostreams.so > /usr/lib/aarch64-linux-gnu/libboost_regex.so > /usr/lib/aarch64-linux-gnu/libtiff.so /usr/lib/aarch64-linux-gnu/libpng.so > /usr/lib/aarch64-linux-gnu/libz.so > make[4]: Leaving directory '/<<PKGBUILDDIR>>/obj-aarch64-linux-gnu' > [ 94%] Built target ost_io_tests > E: Build killed with signal TERM after 150 minutes of inactivity The full build log is available from: http://qa-logs.debian.net/2020/12/05/openstructure_2.2.0-1_unstable.log A list of current common problems and possible solutions is available at http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute! If you reassign this bug to another package, please marking it as 'affects'-ing this package. See https://www.debian.org/Bugs/server-control#affects If you fail to reproduce this, please provide a build log and diff it with me so that we can identify if something relevant changed in the meantime. About the archive rebuild: The rebuild was done on EC2 VM instances from Amazon Web Services, using a clean, minimal and up-to-date chroot. Every failed build was retried once to eliminate random failures.
