Source: openstructure
Version: 2.2.0-8
Severity: serious
Justification: FTBFS
Tags: bookworm sid ftbfs
User: lu...@debian.org
Usertags: ftbfs-20211220 ftbfs-bookworm
Hi,
During a rebuild of all packages in sid, your package failed to build
on amd64.
Relevant part (hopefully):
> make[4]: Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
> [ 95%] running checks test_table.py
> cd /<<PKGBUILDDIR>>/modules/base/tests && sh -c
> "PYTHONPATH=/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/
> /usr/bin/python3.9 /<<PKGBUILDDIR>>/modules/base/tests/test_table.py"
> .......................[ 95%] Building CXX object
> modules/mol/mm/tests/CMakeFiles/ost_mol_mm_tests.dir/test_block.cc.o
> cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/modules/mol/mm/tests && /usr/bin/c++
> -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB
> -I/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3
> -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem
> /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2
> -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes
> -g -fPIC -MD -MT
> modules/mol/mm/tests/CMakeFiles/ost_mol_mm_tests.dir/test_block.cc.o -MF
> CMakeFiles/ost_mol_mm_tests.dir/test_block.cc.o.d -o
> CMakeFiles/ost_mol_mm_tests.dir/test_block.cc.o -c
> /<<PKGBUILDDIR>>/modules/mol/mm/tests/test_block.cc
> ...............[ 95%] Building CXX object
> modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o
> cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/modules/seq/alg/tests &&
> /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB
> -I/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3
> -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem
> /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2
> -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes
> -g -fPIC -MD -MT
> modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o
> -MF CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o.d -o
> CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o -c
> /<<PKGBUILDDIR>>/modules/seq/alg/tests/test_sequence_identity.cc
> /usr/lib/python3.9/unittest/case.py:550: ResourceWarning: unclosed file
> <_io.BufferedReader name='testfiles/enrichment-out.png'>
> method()
> ResourceWarning: Enable tracemalloc to get the object allocation traceback
> .E/usr/lib/python3.9/unittest/case.py:550: ResourceWarning: unclosed file
> <_io.BufferedReader name='testfiles/roc-out.png'>
> method()
> ResourceWarning: Enable tracemalloc to get the object allocation traceback
> ./usr/lib/python3.9/unittest/case.py:550: ResourceWarning: unclosed file
> <_io.BufferedReader name='testfiles/roc-same-val-out.png'>
> method()
> ResourceWarning: Enable tracemalloc to get the object allocation traceback
> ................./<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ost/table.py:2186:
> DeprecationWarning: scipy.isnan is deprecated and will be removed in SciPy
> 2.0.0, use numpy.isnan instead
> if scipy.isnan(correl):
> .........................
> ======================================================================
> ERROR: testPlotLogROC (__main__.TestTable)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
> File "/<<PKGBUILDDIR>>/modules/base/tests/test_table.py", line 1309, in
> testPlotLogROC
> pl = tab.PlotLogROC(score_col='score', score_dir='+',
> File
> "/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/lib/python3.9/dist-packages/ost/table.py",
> line 2963, in PlotLogROC
> plt.xscale('log', basex=10)
> File "/usr/lib/python3/dist-packages/matplotlib/pyplot.py", line 3049, in
> xscale
> return gca().set_xscale(value, **kwargs)
> File "/usr/lib/python3/dist-packages/matplotlib/axes/_base.py", line 3773,
> in set_xscale
> ax.xaxis._set_scale(value, **kwargs)
> File "/usr/lib/python3/dist-packages/matplotlib/axis.py", line 761, in
> _set_scale
> self._scale = mscale.scale_factory(value, self, **kwargs)
> File "/usr/lib/python3/dist-packages/matplotlib/scale.py", line 597, in
> scale_factory
> return scale_cls(axis, **kwargs)
> TypeError: __init__() got an unexpected keyword argument 'basex'
>
> ----------------------------------------------------------------------
> Ran 83 tests in 1.250s
>
> FAILED (errors=1)
> make[4]: ***
> [modules/base/tests/CMakeFiles/test_table.py_run.dir/build.make:74:
> modules/base/tests/CMakeFiles/test_table.py_run] Error 1
> make[4]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
> make[3]: *** [CMakeFiles/Makefile2:2038:
> modules/base/tests/CMakeFiles/test_table.py_run.dir/all] Error 2
> make[3]: *** Waiting for unfinished jobs....
> [ 95%] Building CXX object
> modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/tests.cc.o
> cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/modules/seq/alg/tests &&
> /usr/bin/c++ -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB
> -I/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3
> -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem
> /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2
> -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes
> -g -fPIC -MD -MT
> modules/seq/alg/tests/CMakeFiles/ost_seq_alg_tests.dir/tests.cc.o -MF
> CMakeFiles/ost_seq_alg_tests.dir/tests.cc.o.d -o
> CMakeFiles/ost_seq_alg_tests.dir/tests.cc.o -c
> /<<PKGBUILDDIR>>/modules/seq/alg/tests/tests.cc
> [ 95%] Building CXX object
> modules/mol/mm/tests/CMakeFiles/ost_mol_mm_tests.dir/test_block_modifiers.cc.o
> cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/modules/mol/mm/tests && /usr/bin/c++
> -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB
> -I/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3
> -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem
> /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2
> -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes
> -g -fPIC -MD -MT
> modules/mol/mm/tests/CMakeFiles/ost_mol_mm_tests.dir/test_block_modifiers.cc.o
> -MF CMakeFiles/ost_mol_mm_tests.dir/test_block_modifiers.cc.o.d -o
> CMakeFiles/ost_mol_mm_tests.dir/test_block_modifiers.cc.o -c
> /<<PKGBUILDDIR>>/modules/mol/mm/tests/test_block_modifiers.cc
> [ 95%] Building CXX object
> modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_sdf.cc.o
> cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++
> -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB
> -I/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3
> -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem
> /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2
> -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes
> -g -fPIC -MD -MT
> modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_sdf.cc.o -MF
> CMakeFiles/ost_io_tests.dir/test_io_sdf.cc.o.d -o
> CMakeFiles/ost_io_tests.dir/test_io_sdf.cc.o -c
> /<<PKGBUILDDIR>>/modules/io/tests/test_io_sdf.cc
> [ 95%] Linking CXX executable ../../../../tests/ost_seq_alg_tests
> cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/modules/seq/alg/tests &&
> /usr/bin/cmake -E cmake_link_script CMakeFiles/ost_seq_alg_tests.dir/link.txt
> --verbose=1
> /usr/bin/c++ -g -O2 -ffile-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_seq_alg_tests.dir/test_distance_analysis.cc.o
> CMakeFiles/ost_seq_alg_tests.dir/test_merge_pairwise_alignments.cc.o
> CMakeFiles/ost_seq_alg_tests.dir/test_sequence_identity.cc.o
> CMakeFiles/ost_seq_alg_tests.dir/tests.cc.o -o
> ../../../../tests/ost_seq_alg_tests
> -L/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/lib
> -Wl,-rpath,/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/lib
> /usr/lib/x86_64-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_seq_alg.so.2.2.0
> ../../../../stage/lib/libost_conop.so.2.2.0
> ../../../../stage/lib/libost_db.so.2.2.0
> ../../../../stage/lib/libost_seq.so.2.2.0
> ../../../../stage/lib/libost_mol.so.2.2.0
> /usr/lib/x86_64-linux-gnu/libsqlite3.so
> /usr/lib/x86_64-linux-gnu/libboost_program_options.so
> /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread
> /usr/lib/x86_64-linux-gnu/libboost_chrono.so
> /usr/lib/x86_64-linux-gnu/libboost_date_time.so
> /usr/lib/x86_64-linux-gnu/libboost_atomic.so
> ../../../../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/x86_64-linux-gnu/libboost_filesystem.so
> /usr/lib/x86_64-linux-gnu/libboost_system.so
> /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2
> /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2
> /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2
> /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2
> /usr/lib/x86_64-linux-gnu/libfftw3f.so
> /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so
> /usr/lib/x86_64-linux-gnu/libboost_iostreams.so
> /usr/lib/x86_64-linux-gnu/libboost_regex.so
> /usr/lib/x86_64-linux-gnu/libtiff.so /usr/lib/x86_64-linux-gnu/libpng.so
> /usr/lib/x86_64-linux-gnu/libz.so
> make[4]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
> [ 95%] Built target ost_seq_alg_tests
> [ 95%] Building CXX object
> modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o
> cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++
> -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB
> -I/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3
> -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem
> /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2
> -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes
> -g -fPIC -MD -MT
> modules/io/tests/CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o
> -MF CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o.d -o
> CMakeFiles/ost_io_tests.dir/test_io_sequence_profile.cc.o -c
> /<<PKGBUILDDIR>>/modules/io/tests/test_io_sequence_profile.cc
> [ 96%] Building CXX object
> modules/mol/mm/tests/CMakeFiles/ost_mol_mm_tests.dir/test_topology.cc.o
> cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/modules/mol/mm/tests && /usr/bin/c++
> -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB
> -I/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3
> -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem
> /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2
> -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes
> -g -fPIC -MD -MT
> modules/mol/mm/tests/CMakeFiles/ost_mol_mm_tests.dir/test_topology.cc.o -MF
> CMakeFiles/ost_mol_mm_tests.dir/test_topology.cc.o.d -o
> CMakeFiles/ost_mol_mm_tests.dir/test_topology.cc.o -c
> /<<PKGBUILDDIR>>/modules/mol/mm/tests/test_topology.cc
> [ 96%] Building CXX object
> modules/mol/mm/tests/CMakeFiles/ost_mol_mm_tests.dir/test_forcefield.cc.o
> cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/modules/mol/mm/tests && /usr/bin/c++
> -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB
> -I/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3
> -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem
> /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2
> -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes
> -g -fPIC -MD -MT
> modules/mol/mm/tests/CMakeFiles/ost_mol_mm_tests.dir/test_forcefield.cc.o -MF
> CMakeFiles/ost_mol_mm_tests.dir/test_forcefield.cc.o.d -o
> CMakeFiles/ost_mol_mm_tests.dir/test_forcefield.cc.o -c
> /<<PKGBUILDDIR>>/modules/mol/mm/tests/test_forcefield.cc
> [ 96%] Building CXX object
> modules/io/tests/CMakeFiles/ost_io_tests.dir/test_pir.cc.o
> cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++
> -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB
> -I/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3
> -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem
> /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2
> -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes
> -g -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/test_pir.cc.o
> -MF CMakeFiles/ost_io_tests.dir/test_pir.cc.o.d -o
> CMakeFiles/ost_io_tests.dir/test_pir.cc.o -c
> /<<PKGBUILDDIR>>/modules/io/tests/test_pir.cc
> [ 96%] Building CXX object
> modules/io/tests/CMakeFiles/ost_io_tests.dir/test_iomanager.cc.o
> cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++
> -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB
> -I/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3
> -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem
> /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2
> -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes
> -g -fPIC -MD -MT
> modules/io/tests/CMakeFiles/ost_io_tests.dir/test_iomanager.cc.o -MF
> CMakeFiles/ost_io_tests.dir/test_iomanager.cc.o.d -o
> CMakeFiles/ost_io_tests.dir/test_iomanager.cc.o -c
> /<<PKGBUILDDIR>>/modules/io/tests/test_iomanager.cc
> [ 97%] Building CXX object
> modules/io/tests/CMakeFiles/ost_io_tests.dir/tests.cc.o
> cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++
> -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB
> -I/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3
> -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem
> /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtWidgets -g -O2
> -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat
> -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wno-attributes
> -g -fPIC -MD -MT modules/io/tests/CMakeFiles/ost_io_tests.dir/tests.cc.o -MF
> CMakeFiles/ost_io_tests.dir/tests.cc.o.d -o
> CMakeFiles/ost_io_tests.dir/tests.cc.o -c
> /<<PKGBUILDDIR>>/modules/io/tests/tests.cc
> [ 97%] Building CXX object
> modules/io/tests/CMakeFiles/ost_io_tests.dir/test_star_parser.cc.o
> cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++
> -DQT_CORE_LIB -DQT_GUI_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB
> -I/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/stage/include -I/usr/include/eigen3
> -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem
> /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem
> /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem
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> modules/io/tests/CMakeFiles/ost_io_tests.dir/test_mmcif_reader.cc.o
> cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++
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> modules/mol/mm/tests/CMakeFiles/ost_mol_mm_tests.dir/test_simulation.cc.o
> cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/modules/mol/mm/tests && /usr/bin/c++
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> cd /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/modules/io/tests && /usr/bin/c++
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> ../../../../stage/lib/libost_seq_alg.so.2.2.0
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> /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2
> /usr/lib/x86_64-linux-gnu/libOpenMM.so
> make[4]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
> [ 97%] Built target ost_mol_mm_tests
> [ 97%] Building CXX object
> modules/io/tests/CMakeFiles/ost_io_tests.dir/test_exceptions.cc.o
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> /<<PKGBUILDDIR>>/modules/io/tests/test_exceptions.cc
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> -E cmake_link_script CMakeFiles/ost_io_tests.dir/link.txt --verbose=1
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> 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
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> CMakeFiles/ost_io_tests.dir/tests.cc.o
> CMakeFiles/ost_io_tests.dir/test_star_parser.cc.o
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> ../../../tests/ost_io_tests
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> ../../../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/x86_64-linux-gnu/libsqlite3.so
> /usr/lib/x86_64-linux-gnu/libboost_program_options.so
> /usr/lib/x86_64-linux-gnu/libboost_thread.so -lpthread
> /usr/lib/x86_64-linux-gnu/libboost_chrono.so
> /usr/lib/x86_64-linux-gnu/libboost_date_time.so
> /usr/lib/x86_64-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/x86_64-linux-gnu/libboost_filesystem.so
> /usr/lib/x86_64-linux-gnu/libboost_system.so
> /usr/lib/x86_64-linux-gnu/libQt5Xml.so.5.15.2
> /usr/lib/x86_64-linux-gnu/libQt5Widgets.so.5.15.2
> /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5.15.2
> /usr/lib/x86_64-linux-gnu/libQt5Core.so.5.15.2
> /usr/lib/x86_64-linux-gnu/libfftw3f.so
> /usr/lib/x86_64-linux-gnu/libfftw3f_threads.so
> /usr/lib/x86_64-linux-gnu/libboost_iostreams.so
> /usr/lib/x86_64-linux-gnu/libboost_regex.so
> /usr/lib/x86_64-linux-gnu/libtiff.so /usr/lib/x86_64-linux-gnu/libpng.so
> /usr/lib/x86_64-linux-gnu/libz.so
> make[4]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
> [ 97%] Built target ost_io_tests
> make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
> make[2]: *** [CMakeFiles/Makefile2:1653: CMakeFiles/check.dir/rule] Error 2
> make[2]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
> make[1]: *** [Makefile:192: check] Error 2
> make[1]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
> dh_auto_test: error: cd obj-x86_64-linux-gnu && make -j4 check
> ARGS\+=--verbose ARGS\+=-j4 returned exit code 2
The full build log is available from:
http://qa-logs.debian.net/2021/12/20/openstructure_2.2.0-8_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 mine
so that we can identify if something relevant changed in the meantime.
