Bug#947717: pbcopper FTBFS on all architectures except x32
On Sun, Dec 29, 2019 at 07:00:54PM +0100, Michael Crusoe wrote: > pbcopper's latest release has slipped in a code copy of libssw which uses > x86 SIMD intrinsics. I've pushed up a fix along the lines I made to libssw > to enable cross architecture compilation at > https://salsa.debian.org/med-team/pbcopper/commit/f9678ed29590b57fe30638eed3d6819577b4ace1 > and it awaits sponsorship Thanks a lot for the fix that is sponsored. However, for s390[1] there seems to be a timout problem: ... debian/rules override_dh_auto_test make[1]: Entering directory '/<>' cd build && meson test --no-rebuild --print-errorlogs 1/2 pbcopper formatting check OK 0.01 s 2/2 pbcopper gtest unittestsTIMEOUT 33.17 s Ok:1 Expected Fail: 0 Fail: 0 Unexpected Pass: 0 Skipped: 0 Timeout: 1 The output from the failed tests: 2/2 pbcopper gtest unittestsTIMEOUT 33.17 s --- command --- VERBOSE='1' ARGS='-V' /<>/build/tests/pbcopper_test --gtest_output=xml:/<>/build/pbcopper-gtest-unittests.xml --- stdout --- Running main() from /build/googletest-b6wiRD/googletest-1.9.0.20190831/googletest/src/gtest_main.cc [==] Running 355 tests from 53 test suites. [--] Global test environment set-up. [--] 6 tests from CLI_Runner [ RUN ] CLI_Runner.emits_tool_contract_when_requested_from_command_line [ OK ] CLI_Runner.emits_tool_contract_when_requested_from_command_line (0 ms) [ RUN ] CLI_Runner.runs_application_from_vector_of_args [ OK ] CLI_Runner.runs_application_from_vector_of_args (0 ms) [ RUN ] CLI_Runner.runs_application_from_C_style_args [ OK ] CLI_Runner.runs_application_from_C_style_args (0 ms) [ RUN ] CLI_Runner.can_retrieve_input_commandline [ OK ] CLI_Runner.can_retrieve_input_commandline (1 ms) [ RUN ] CLI_Runner.runs_application_from_resolved_tool_contract [ OK ] CLI_Runner.runs_application_from_resolved_tool_contract (0 ms) [ RUN ] CLI_Runner.throws_on_invalid_choices [ OK ] CLI_Runner.throws_on_invalid_choices (0 ms) [--] 6 tests from CLI_Runner (1 ms total) [--] 5 tests from Align_PairwiseAlignment [ RUN ] Align_PairwiseAlignment.calculates_metrics_from_input_aligned_sequences [ OK ] Align_PairwiseAlignment.calculates_metrics_from_input_aligned_sequences (0 ms) [ RUN ] Align_PairwiseAlignment.can_generate_basic_global_alignments [ OK ] Align_PairwiseAlignment.can_generate_basic_global_alignments (0 ms) [ RUN ] Align_PairwiseAlignment.maps_target_to_query_positions_from_transcript [ OK ] Align_PairwiseAlignment.maps_target_to_query_positions_from_transcript (0 ms) [ RUN ] Align_PairwiseAlignment.check_justify_internals [ OK ] Align_PairwiseAlignment.check_justify_internals (0 ms) [ RUN ] Align_PairwiseAlignment.can_left_and_right_justify_alignments [ OK ] Align_PairwiseAlignment.can_left_and_right_justify_alignments (0 ms) [--] 5 tests from Align_PairwiseAlignment (0 ms total) [--] 3 tests from Align_AffineAlignment [ RUN ] Align_AffineAlignment.can_generate_basic_affine_alignments [ OK ] Align_AffineAlignment.can_generate_basic_affine_alignments (0 ms) [ RUN ] Align_AffineAlignment.correctly_aligns_large_insertion [ OK ] Align_AffineAlignment.correctly_aligns_large_insertion (10 ms) [ RUN ] Align_AffineAlignment.can_generate_IUPAC_aware_alignments [ OK ] Align_AffineAlignment.can_generate_IUPAC_aware_alignments (0 ms) [--] 3 tests from Align_AffineAlignment (10 ms total) [--] 1 test from Align_LinearAlignment [ RUN ] Align_LinearAlignment.can_generate_basic_linear_alignments [ OK ] Align_LinearAlignment.can_generate_basic_linear_alignments (2 ms) [--] 1 test from Align_LinearAlignment (2 ms total) [--] 1 test from Align_LocalAlignment [ RUN ] Align_LocalAlignment.can_generate_basic_local_alignments --- Full log written to /<>/build/meson-logs/testlog.txt make[1]: *** [debian/rules:15: override_dh_auto_test] Error 1 Kind regards Andreas. [1] https://buildd.debian.org/status/fetch.php?pkg=pbcopper=s390x=1.3.0%2Bdfsg-2=1577654596=0 -- http://fam-tille.de
Bug#947717: pbcopper FTBFS on all architectures except x32
pbcopper's latest release has slipped in a code copy of libssw which uses x86 SIMD intrinsics. I've pushed up a fix along the lines I made to libssw to enable cross architecture compilation at https://salsa.debian.org/med-team/pbcopper/commit/f9678ed29590b57fe30638eed3d6819577b4ace1 and it awaits sponsorship Thanks, On Sun, Dec 29, 2019 at 5:45 PM Andreas Tille wrote: > Control: tags -1 help > > Hi, > > it might be that the new upstream version is targeting only at amd64 > (and by chance builds on x32). If there is a hint from porters how to > fix the build the only idea I have is to restrict it to amd64 (and x32). > > Kind regards > >Andreas. > > On Sun, Dec 29, 2019 at 02:15:58PM +0100, Paul Gevers wrote: > > Source: pbcopper > > Version: 1.3.0+dfsg-1 > > Severity: serious > > Justification: ftbfs > > Tags: ftbfs sid bullseye > > > > Dear maintainer, > > > > Your package fails to build from source on all buildds except x32. Your > > package is involved in the pbbam and htslib transitions and blocking > > progress. Please have a look. > > > > Paul > > > > https://buildd.debian.org/status/package.php?p=pbcopper > > > > Tail of log for pbcopper on arm64: > > > > cc -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude -I../include > > -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe > > -D_FILE_OFFSET_BITS=64 -std=c11 -g -O2 > > -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat > > -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread > > -MD -MQ 'src/25a6634@@pbcopper@sha/align_cssw_ssw.c.o' -MF > > 'src/25a6634@@pbcopper@sha/align_cssw_ssw.c.o.d' -o > > 'src/25a6634@@pbcopper@sha/align_cssw_ssw.c.o' -c > ../src/align/cssw/ssw.c > > ../src/align/cssw/ssw.c:38:10: fatal error: emmintrin.h: No such file or > > directory > >38 | #include > > | ^ > > compilation terminated. > > [9/114] c++ -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude > > -I../include -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe > > -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 > > -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat > > -Werror=format-security -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC > > -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict > > -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ > > 'src/25a6634@@pbcopper@sha/align_LinearAlignment.cpp.o' -MF > > 'src/25a6634@@pbcopper@sha/align_LinearAlignment.cpp.o.d' -o > > 'src/25a6634@@pbcopper@sha/align_LinearAlignment.cpp.o' -c > > ../src/align/LinearAlignment.cpp > > [10/114] c++ -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude > > -I../include -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe > > -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 > > -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat > > -Werror=format-security -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC > > -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict > > -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ > > 'src/25a6634@@pbcopper@sha/align_BandedChainAlignment.cpp.o' -MF > > 'src/25a6634@@pbcopper@sha/align_BandedChainAlignment.cpp.o.d' -o > > 'src/25a6634@@pbcopper@sha/align_BandedChainAlignment.cpp.o' -c > > ../src/align/BandedChainAlignment.cpp > > [11/114] c++ -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude > > -I../include -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe > > -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 > > -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat > > -Werror=format-security -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC > > -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict > > -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ > > 'src/25a6634@@pbcopper@sha/align_AffineAlignment.cpp.o' -MF > > 'src/25a6634@@pbcopper@sha/align_AffineAlignment.cpp.o.d' -o > > 'src/25a6634@@pbcopper@sha/align_AffineAlignment.cpp.o' -c > > ../src/align/AffineAlignment.cpp > > [12/114] c++ -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude > > -I../include -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe > > -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 > > -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat > > -Werror=format-security -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC > > -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict > > -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ > > 'src/25a6634@@pbcopper@sha/align_SparseAlignment.cpp.o' -MF > > 'src/25a6634@@pbcopper@sha/align_SparseAlignment.cpp.o.d' -o > > 'src/25a6634@@pbcopper@sha/align_SparseAlignment.cpp.o' -c > > ../src/align/SparseAlignment.cpp > > [13/114] c++ -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude > > -I../include -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe > > -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 > > -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat > > -Werror=format-security -fPIC -Wdate-time -D_FORTIFY_SOURCE=2
Bug#947717: pbcopper FTBFS on all architectures except x32
Control: tags -1 help Hi, it might be that the new upstream version is targeting only at amd64 (and by chance builds on x32). If there is a hint from porters how to fix the build the only idea I have is to restrict it to amd64 (and x32). Kind regards Andreas. On Sun, Dec 29, 2019 at 02:15:58PM +0100, Paul Gevers wrote: > Source: pbcopper > Version: 1.3.0+dfsg-1 > Severity: serious > Justification: ftbfs > Tags: ftbfs sid bullseye > > Dear maintainer, > > Your package fails to build from source on all buildds except x32. Your > package is involved in the pbbam and htslib transitions and blocking > progress. Please have a look. > > Paul > > https://buildd.debian.org/status/package.php?p=pbcopper > > Tail of log for pbcopper on arm64: > > cc -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude -I../include > -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe > -D_FILE_OFFSET_BITS=64 -std=c11 -g -O2 > -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat > -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread > -MD -MQ 'src/25a6634@@pbcopper@sha/align_cssw_ssw.c.o' -MF > 'src/25a6634@@pbcopper@sha/align_cssw_ssw.c.o.d' -o > 'src/25a6634@@pbcopper@sha/align_cssw_ssw.c.o' -c ../src/align/cssw/ssw.c > ../src/align/cssw/ssw.c:38:10: fatal error: emmintrin.h: No such file or > directory >38 | #include > | ^ > compilation terminated. > [9/114] c++ -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude > -I../include -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe > -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 > -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat > -Werror=format-security -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC > -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict > -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ > 'src/25a6634@@pbcopper@sha/align_LinearAlignment.cpp.o' -MF > 'src/25a6634@@pbcopper@sha/align_LinearAlignment.cpp.o.d' -o > 'src/25a6634@@pbcopper@sha/align_LinearAlignment.cpp.o' -c > ../src/align/LinearAlignment.cpp > [10/114] c++ -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude > -I../include -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe > -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 > -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat > -Werror=format-security -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC > -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict > -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ > 'src/25a6634@@pbcopper@sha/align_BandedChainAlignment.cpp.o' -MF > 'src/25a6634@@pbcopper@sha/align_BandedChainAlignment.cpp.o.d' -o > 'src/25a6634@@pbcopper@sha/align_BandedChainAlignment.cpp.o' -c > ../src/align/BandedChainAlignment.cpp > [11/114] c++ -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude > -I../include -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe > -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 > -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat > -Werror=format-security -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC > -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict > -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ > 'src/25a6634@@pbcopper@sha/align_AffineAlignment.cpp.o' -MF > 'src/25a6634@@pbcopper@sha/align_AffineAlignment.cpp.o.d' -o > 'src/25a6634@@pbcopper@sha/align_AffineAlignment.cpp.o' -c > ../src/align/AffineAlignment.cpp > [12/114] c++ -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude > -I../include -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe > -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 > -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat > -Werror=format-security -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC > -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict > -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ > 'src/25a6634@@pbcopper@sha/align_SparseAlignment.cpp.o' -MF > 'src/25a6634@@pbcopper@sha/align_SparseAlignment.cpp.o.d' -o > 'src/25a6634@@pbcopper@sha/align_SparseAlignment.cpp.o' -c > ../src/align/SparseAlignment.cpp > [13/114] c++ -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude > -I../include -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe > -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 > -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat > -Werror=format-security -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC > -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict > -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ > 'src/25a6634@@pbcopper@sha/align_PairwiseAlignment.cpp.o' -MF > 'src/25a6634@@pbcopper@sha/align_PairwiseAlignment.cpp.o.d' -o > 'src/25a6634@@pbcopper@sha/align_PairwiseAlignment.cpp.o' -c > ../src/align/PairwiseAlignment.cpp > [14/114] c++ -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude > -I../include -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe > -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2
Bug#947717: pbcopper FTBFS on all architectures except x32
Source: pbcopper Version: 1.3.0+dfsg-1 Severity: serious Justification: ftbfs Tags: ftbfs sid bullseye Dear maintainer, Your package fails to build from source on all buildds except x32. Your package is involved in the pbbam and htslib transitions and blocking progress. Please have a look. Paul https://buildd.debian.org/status/package.php?p=pbcopper Tail of log for pbcopper on arm64: cc -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude -I../include -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe -D_FILE_OFFSET_BITS=64 -std=c11 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -MD -MQ 'src/25a6634@@pbcopper@sha/align_cssw_ssw.c.o' -MF 'src/25a6634@@pbcopper@sha/align_cssw_ssw.c.o.d' -o 'src/25a6634@@pbcopper@sha/align_cssw_ssw.c.o' -c ../src/align/cssw/ssw.c ../src/align/cssw/ssw.c:38:10: fatal error: emmintrin.h: No such file or directory 38 | #include | ^ compilation terminated. [9/114] c++ -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude -I../include -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'src/25a6634@@pbcopper@sha/align_LinearAlignment.cpp.o' -MF 'src/25a6634@@pbcopper@sha/align_LinearAlignment.cpp.o.d' -o 'src/25a6634@@pbcopper@sha/align_LinearAlignment.cpp.o' -c ../src/align/LinearAlignment.cpp [10/114] c++ -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude -I../include -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'src/25a6634@@pbcopper@sha/align_BandedChainAlignment.cpp.o' -MF 'src/25a6634@@pbcopper@sha/align_BandedChainAlignment.cpp.o.d' -o 'src/25a6634@@pbcopper@sha/align_BandedChainAlignment.cpp.o' -c ../src/align/BandedChainAlignment.cpp [11/114] c++ -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude -I../include -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'src/25a6634@@pbcopper@sha/align_AffineAlignment.cpp.o' -MF 'src/25a6634@@pbcopper@sha/align_AffineAlignment.cpp.o.d' -o 'src/25a6634@@pbcopper@sha/align_AffineAlignment.cpp.o' -c ../src/align/AffineAlignment.cpp [12/114] c++ -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude -I../include -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'src/25a6634@@pbcopper@sha/align_SparseAlignment.cpp.o' -MF 'src/25a6634@@pbcopper@sha/align_SparseAlignment.cpp.o.d' -o 'src/25a6634@@pbcopper@sha/align_SparseAlignment.cpp.o' -c ../src/align/SparseAlignment.cpp [13/114] c++ -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude -I../include -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'src/25a6634@@pbcopper@sha/align_PairwiseAlignment.cpp.o' -MF 'src/25a6634@@pbcopper@sha/align_PairwiseAlignment.cpp.o.d' -o 'src/25a6634@@pbcopper@sha/align_PairwiseAlignment.cpp.o' -c ../src/align/PairwiseAlignment.cpp [14/114] c++ -Isrc/25a6634@@pbcopper@sha -Isrc -I../src -Iinclude -I../include -Isrc/utility -fdiagnostics-color=always -DNDEBUG -pipe -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 -fdebug-prefix-map=/<>=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'src/25a6634@@pbcopper@sha/align_FindSeeds.cpp.o' -MF 'src/25a6634@@pbcopper@sha/align_FindSeeds.cpp.o.d' -o 'src/25a6634@@pbcopper@sha/align_FindSeeds.cpp.o' -c ../src/align/FindSeeds.cpp [15/114] c++ -Isrc/25a6634@@pbcopper@sha -Isrc -I../src
