Source: seqan3 Version: 3.0.1+ds-8 Severity: serious Justification: FTBFS on amd64 Tags: bullseye sid ftbfs Usertags: ftbfs-20200321 ftbfs-bullseye
Hi, During a rebuild of all packages in sid, your package failed to build on amd64. Relevant part (hopefully): > /usr/bin/c++ -DSEQAN3_HAS_BZIP2=1 -DSEQAN3_HAS_ZLIB=1 > -Ivendor/googletest/googletest/include -I/<<PKGBUILDDIR>>/test/include > -I/<<PKGBUILDDIR>>/include -isystem > /<<PKGBUILDDIR>>/submodules/sdsl-lite/include -g -O2 > -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat > -Werror=format-security -fuse-ld=gold -DNDEBUG -O3 -std=c++2a -Wdate-time > -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Werror -fconcepts -pthread -MD > -MT > alignment/matrix/detail/CMakeFiles/two_dimensional_matrix_test.dir/two_dimensional_matrix_test.cpp.o > -MF > alignment/matrix/detail/CMakeFiles/two_dimensional_matrix_test.dir/two_dimensional_matrix_test.cpp.o.d > -o > alignment/matrix/detail/CMakeFiles/two_dimensional_matrix_test.dir/two_dimensional_matrix_test.cpp.o > -c > /<<PKGBUILDDIR>>/test/unit/alignment/matrix/detail/two_dimensional_matrix_test.cpp > /<<PKGBUILDDIR>>/test/unit/alignment/matrix/detail/two_dimensional_matrix_test.cpp: > In instantiation of ‘std::vector<T> create_matrix_storage() [with score_type > = __vector(1) int; seqan3::detail::matrix_major_order order = > seqan3::detail::matrix_major_order::row]’: > /usr/include/gtest/internal/gtest-internal.h:460:40: recursively required > from > ‘gtest_suite_iterator_fixture_::compare_geq<seqan3::detail::two_dimensional_matrix<__vector(1) > int, std::allocator<__vector(1) int>, > seqan3::detail::matrix_major_order::column> >::compare_geq()’ > /usr/include/gtest/internal/gtest-internal.h:460:40: required from > ‘testing::Test* testing::internal::TestFactoryImpl<TestClass>::CreateTest() > [with TestClass = > gtest_suite_iterator_fixture_::compare_geq<seqan3::detail::two_dimensional_matrix<__vector(1) > int, std::allocator<__vector(1) int>, > seqan3::detail::matrix_major_order::column> >]’ > /usr/include/gtest/internal/gtest-internal.h:460:9: required from here > /<<PKGBUILDDIR>>/test/unit/alignment/matrix/detail/two_dimensional_matrix_test.cpp:43:15: > error: invalid type ‘__vector(1) int’ as initializer for a vector of type > ‘const __vector(1) int’ > 43 | storage_t row_wise > | ^~~~~~~~ > /<<PKGBUILDDIR>>/test/unit/alignment/matrix/detail/two_dimensional_matrix_test.cpp:50:15: > error: invalid type ‘__vector(1) int’ as initializer for a vector of type > ‘const __vector(1) int’ > 50 | storage_t column_wise > | ^~~~~~~~~~~ > /<<PKGBUILDDIR>>/test/unit/alignment/matrix/detail/two_dimensional_matrix_test.cpp: > In instantiation of ‘std::vector<T> create_matrix_storage() [with score_type > = __vector(1) int; seqan3::detail::matrix_major_order order = > seqan3::detail::matrix_major_order::column]’: > /usr/include/gtest/internal/gtest-internal.h:460:40: recursively required > from > ‘gtest_suite_iterator_fixture_::compare_geq<seqan3::detail::two_dimensional_matrix<__vector(1) > int, std::allocator<__vector(1) int>, > seqan3::detail::matrix_major_order::column> >::compare_geq()’ > /usr/include/gtest/internal/gtest-internal.h:460:40: required from > ‘testing::Test* testing::internal::TestFactoryImpl<TestClass>::CreateTest() > [with TestClass = > gtest_suite_iterator_fixture_::compare_geq<seqan3::detail::two_dimensional_matrix<__vector(1) > int, std::allocator<__vector(1) int>, > seqan3::detail::matrix_major_order::column> >]’ > /usr/include/gtest/internal/gtest-internal.h:460:9: required from here > /<<PKGBUILDDIR>>/test/unit/alignment/matrix/detail/two_dimensional_matrix_test.cpp:43:15: > error: invalid type ‘__vector(1) int’ as initializer for a vector of type > ‘const __vector(1) int’ > 43 | storage_t row_wise > | ^~~~~~~~ > /<<PKGBUILDDIR>>/test/unit/alignment/matrix/detail/two_dimensional_matrix_test.cpp:50:15: > error: invalid type ‘__vector(1) int’ as initializer for a vector of type > ‘const __vector(1) int’ > 50 | storage_t column_wise > | ^~~~~~~~~~~ > [67/502] : && /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. > -fstack-protector-strong -Wformat -Werror=format-security -fuse-ld=gold > -DNDEBUG -O3 -std=c++2a -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro > alignment/matrix/detail/CMakeFiles/alignment_trace_matrix_full_test.dir/alignment_trace_matrix_full_test.cpp.o > -o alignment/matrix/detail/alignment_trace_matrix_full_test -pthread > /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libbz2.so -lrt > lib/libgtest_main.a lib/libgtest.a -lpthread && cd > /<<PKGBUILDDIR>>/build_unit/alignment/matrix/detail && /usr/bin/cmake -D > TEST_TARGET=alignment_trace_matrix_full_test -D > TEST_EXECUTABLE=/<<PKGBUILDDIR>>/build_unit/alignment/matrix/detail/alignment_trace_matrix_full_test > -D TEST_EXECUTOR= -D > TEST_WORKING_DIR=/<<PKGBUILDDIR>>/build_unit/alignment/matrix/detail -D > TEST_EXTRA_ARGS= -D TEST_PROPERTIES= -D > TEST_PREFIX=alignment/matrix/detail/alignment_trace_matrix_full_test:: -D > TEST_SUFFIX= -D NO_PRETTY_TYPES=FALSE -D NO_PRETTY_VALUES=FALSE -D > TEST_LIST=alignment_trace_matrix_full_test_TESTS -D > CTEST_FILE=/<<PKGBUILDDIR>>/build_unit/alignment/matrix/detail/alignment_trace_matrix_full_test[1]_tests.cmake > -D TEST_DISCOVERY_TIMEOUT=5 -P > /usr/share/cmake-3.16/Modules/GoogleTestAddTests.cmake > [68/502] /usr/bin/c++ -DSEQAN3_HAS_BZIP2=1 -DSEQAN3_HAS_ZLIB=1 > -Ivendor/googletest/googletest/include -I/<<PKGBUILDDIR>>/test/include > -I/<<PKGBUILDDIR>>/include -isystem > /<<PKGBUILDDIR>>/submodules/sdsl-lite/include -g -O2 > -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat > -Werror=format-security -fuse-ld=gold -DNDEBUG -O3 -std=c++2a -Wdate-time > -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Werror -fconcepts -pthread -MD > -MT > alignment/matrix/detail/CMakeFiles/alignment_trace_matrix_full_banded_test.dir/alignment_trace_matrix_full_banded_test.cpp.o > -MF > alignment/matrix/detail/CMakeFiles/alignment_trace_matrix_full_banded_test.dir/alignment_trace_matrix_full_banded_test.cpp.o.d > -o > alignment/matrix/detail/CMakeFiles/alignment_trace_matrix_full_banded_test.dir/alignment_trace_matrix_full_banded_test.cpp.o > -c > /<<PKGBUILDDIR>>/test/unit/alignment/matrix/detail/alignment_trace_matrix_full_banded_test.cpp > [69/502] /usr/bin/c++ -DSEQAN3_HAS_BZIP2=1 -DSEQAN3_HAS_ZLIB=1 > -Ivendor/googletest/googletest/include -I/<<PKGBUILDDIR>>/test/include > -I/<<PKGBUILDDIR>>/include -isystem > /<<PKGBUILDDIR>>/submodules/sdsl-lite/include -g -O2 > -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat > -Werror=format-security -fuse-ld=gold -DNDEBUG -O3 -std=c++2a -Wdate-time > -D_FORTIFY_SOURCE=2 -pedantic -Wall -Wextra -Werror -fconcepts -pthread -MD > -MT > alignment/matrix/detail/CMakeFiles/aligned_sequence_builder_test.dir/aligned_sequence_builder_test.cpp.o > -MF > alignment/matrix/detail/CMakeFiles/aligned_sequence_builder_test.dir/aligned_sequence_builder_test.cpp.o.d > -o > alignment/matrix/detail/CMakeFiles/aligned_sequence_builder_test.dir/aligned_sequence_builder_test.cpp.o > -c > /<<PKGBUILDDIR>>/test/unit/alignment/matrix/detail/aligned_sequence_builder_test.cpp > ninja: build stopped: subcommand failed. > dh_auto_build: error: cd build_unit && LC_ALL=C.UTF-8 ninja -j4 -v returned > exit code 1 > make[1]: *** [debian/rules:39: override_dh_auto_build] Error 25 The full build log is available from: http://qa-logs.debian.net/2020/03/21/seqan3_3.0.1+ds-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! 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.
