Source: seqan Version: 1.4.2+dfsg-3 Severity: serious Justification: FTBFS on amd64 Tags: bullseye sid ftbfs Usertags: ftbfs-20200222 ftbfs-bullseye
Hi, During a rebuild of all packages in sid, your package failed to build on amd64. Relevant part (hopefully): > make[2]: Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu' > Running tests... > /usr/bin/ctest --force-new-ctest-process -j4 > Test project /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu > Start 1: test_demo_align_align > Start 2: test_demo_align_compute_alignment_stats > Start 3: test_demo_align_gaps_example > Start 4: test_demo_align_global_alignment_banded > 1/95 Test #1: test_demo_align_align > .............................................. Passed 0.03 sec > Start 5: test_demo_align_global_alignment_unbanded > 2/95 Test #2: test_demo_align_compute_alignment_stats > ............................ Passed 0.03 sec > Start 6: test_demo_align_integrate_align > 3/95 Test #4: test_demo_align_global_alignment_banded > ............................ Passed 0.03 sec > Start 7: test_demo_bam_io_bam_stream > 4/95 Test #3: test_demo_align_gaps_example > ....................................... Passed 0.03 sec > Start 8: test_demo_find_finder_index > 5/95 Test #5: test_demo_align_global_alignment_unbanded > .......................... Passed 0.03 sec > Start 9: test_demo_find_finder_online > 6/95 Test #6: test_demo_align_integrate_align > .................................... Passed 0.03 sec > Start 10: test_demo_graph_graph_algo_dijkstra > 7/95 Test #7: test_demo_bam_io_bam_stream > ........................................ Passed 0.03 sec > Start 11: test_demo_graph_algorithms_all_pairs_shortest_path > 8/95 Test #8: test_demo_find_finder_index > ........................................ Passed 0.03 sec > Start 12: test_demo_graph_algorithms_bellman_ford_algorithm > 9/95 Test #9: test_demo_find_finder_online > ....................................... Passed 0.03 sec > Start 13: test_demo_graph_algorithms_breadth_first_search > 10/95 Test #10: test_demo_graph_graph_algo_dijkstra > ................................ Passed 0.03 sec > Start 14: test_demo_graph_algorithms_dag_shortest_path > 11/95 Test #11: test_demo_graph_algorithms_all_pairs_shortest_path > ................. Passed 0.03 sec > Start 15: test_demo_graph_algorithms_depth_first_search > 12/95 Test #12: test_demo_graph_algorithms_bellman_ford_algorithm > .................. Passed 0.03 sec > Start 16: test_demo_graph_algorithms_dijkstra > 13/95 Test #13: test_demo_graph_algorithms_breadth_first_search > .................... Passed 0.03 sec > Start 17: test_demo_graph_algorithms_floyd_warshall_algorithm > 14/95 Test #14: test_demo_graph_algorithms_dag_shortest_path > ....................... Passed 0.03 sec > Start 18: test_demo_graph_algorithms_ford_fulkerson_algorithm > 15/95 Test #15: test_demo_graph_algorithms_depth_first_search > ...................... Passed 0.03 sec > Start 19: test_demo_graph_algorithms_kruskals_algorithm > 16/95 Test #16: test_demo_graph_algorithms_dijkstra > ................................ Passed 0.03 sec > Start 20: test_demo_graph_algorithms_prims_algorithm > 17/95 Test #17: test_demo_graph_algorithms_floyd_warshall_algorithm > ................ Passed 0.03 sec > Start 21: test_demo_graph_algorithms_strongly_connected_components > 18/95 Test #18: test_demo_graph_algorithms_ford_fulkerson_algorithm > ................ Passed 0.03 sec > Start 22: test_demo_graph_algorithms_topological_sort > 19/95 Test #19: test_demo_graph_algorithms_kruskals_algorithm > ...................... Passed 0.03 sec > Start 23: test_demo_graph_algorithms_transitive_closure > 20/95 Test #20: test_demo_graph_algorithms_prims_algorithm > ......................... Passed 0.03 sec > Start 24: test_demo_index_index_begin_atEnd_representative > 21/95 Test #21: test_demo_graph_algorithms_strongly_connected_components > ........... Passed 0.03 sec > Start 25: test_demo_index_index_counting > 22/95 Test #22: test_demo_graph_algorithms_topological_sort > ........................ Passed 0.03 sec > Start 26: test_demo_index_index_finder > 23/95 Test #23: test_demo_graph_algorithms_transitive_closure > ...................... Passed 0.03 sec > Start 27: > test_demo_index_index_getOccurrences_getFrequency_range_getFibre > 24/95 Test #24: test_demo_index_index_begin_atEnd_representative > ................... Passed 0.03 sec > Start 28: test_demo_index_index_iterator > 25/95 Test #26: test_demo_index_index_finder > ....................................... Passed 0.03 sec > Start 29: test_demo_index_index_iterator_short > 26/95 Test #25: test_demo_index_index_counting > ..................................... Passed 0.03 sec > Start 30: test_demo_index_index_length_countSequences > 27/95 Test #27: > test_demo_index_index_getOccurrences_getFrequency_range_getFibre ... Passed > 0.03 sec > Start 31: test_demo_index_index_mummy > 28/95 Test #28: test_demo_index_index_iterator > ..................................... Passed 0.03 sec > Start 32: test_demo_index_index_open_save > 29/95 Test #29: test_demo_index_index_iterator_short > ............................... Passed 0.03 sec > Start 33: test_demo_index_index_textAt_indexText_saAt_indexRequire > 30/95 Test #30: test_demo_index_index_length_countSequences > ........................ Passed 0.03 sec > Start 34: test_demo_input_output_record_reader > 31/95 Test #31: test_demo_index_index_mummy > ........................................ Passed 0.03 sec > Start 35: test_demo_misc_enumerate_strings > 32/95 Test #32: test_demo_index_index_open_save > .................................... Passed 0.03 sec > Start 36: test_demo_modifier_modified_string > 33/95 Test #33: test_demo_index_index_textAt_indexText_saAt_indexRequire > ........... Passed 0.03 sec > Start 37: test_demo_modifier_modified_string_mod_view > 34/95 Test #35: test_demo_misc_enumerate_strings > ................................... Passed 0.03 sec > Start 38: test_demo_modifier_modified_string_nested > 35/95 Test #34: test_demo_input_output_record_reader > ............................... Passed 0.03 sec > Start 39: test_demo_score_score > 36/95 Test #36: test_demo_modifier_modified_string > ................................. Passed 0.03 sec > Start 40: test_demo_seeds_seeds_extension > 37/95 Test #37: test_demo_modifier_modified_string_mod_view > ........................ Passed 0.03 sec > Start 41: test_demo_seq_io_fai_index_example > 38/95 Test #38: test_demo_modifier_modified_string_nested > .......................... Passed 0.03 sec > Start 42: test_demo_seq_io_sequence_stream_read > 39/95 Test #39: test_demo_score_score > .............................................. Passed 0.03 sec > Start 43: test_demo_sequence_string2 > 40/95 Test #40: test_demo_seeds_seeds_extension > .................................... Passed 0.03 sec > Start 44: test_demo_sequence_stringset > 41/95 Test #41: test_demo_seq_io_fai_index_example > ................................. Passed 0.03 sec > Start 45: test_test_align > 42/95 Test #42: test_demo_seq_io_sequence_stream_read > .............................. Passed 0.03 sec > Start 46: test_test_arg_parse > 43/95 Test #43: test_demo_sequence_string2 > ......................................... Passed 0.03 sec > Start 47: test_test_bam_io > 44/95 Test #44: test_demo_sequence_stringset > ....................................... Passed 0.03 sec > Start 48: test_test_basic_exception > 45/95 Test #48: test_test_basic_exception > .......................................... Passed 0.00 sec > Start 49: test_test_basic_metaprogramming > 46/95 Test #45: test_test_align > .................................................... Passed 0.01 sec > Start 50: test_test_basic_fundamental > 47/95 Test #46: test_test_arg_parse > ................................................ Passed 0.01 sec > Start 51: test_test_basic_concept > 48/95 Test #49: test_test_basic_metaprogramming > .................................... Passed 0.00 sec > Start 52: test_test_basic_alphabet > 49/95 Test #50: test_test_basic_fundamental > ........................................ Passed 0.00 sec > Start 53: test_test_basic_aggregate > 50/95 Test #47: test_test_bam_io > ................................................... Passed 0.01 sec > Start 54: test_test_basic_allocator > 51/95 Test #51: test_test_basic_concept > ............................................ Passed 0.00 sec > Start 55: test_test_basic_parallelism > 52/95 Test #52: test_test_basic_alphabet > ........................................... Passed 0.00 sec > Start 56: test_test_basic_math > 53/95 Test #53: test_test_basic_aggregate > .......................................... Passed 0.00 sec > Start 57: test_test_basic_smart_pointer > 54/95 Test #54: test_test_basic_allocator > .......................................... Passed 0.00 sec > Start 58: test_test_basic_container > 55/95 Test #55: test_test_basic_parallelism > ........................................ Passed 0.00 sec > Start 59: test_test_basic_proxy > 56/95 Test #56: test_test_basic_math > ............................................... Passed 0.00 sec > Start 60: test_test_basic_iterator > 57/95 Test #57: test_test_basic_smart_pointer > ...................................... Passed 0.00 sec > Start 61: test_test_consensus > 58/95 Test #58: test_test_basic_container > .......................................... Passed 0.00 sec > Start 62: test_test_file > 59/95 Test #59: test_test_basic_proxy > .............................................. Passed 0.00 sec > Start 63: test_test_find > 60/95 Test #60: test_test_basic_iterator > ........................................... Passed 0.00 sec > Start 64: test_test_gff_io > 61/95 Test #62: test_test_file > ..................................................... Passed 0.00 sec > Start 65: test_test_graph_algorithms > 62/95 Test #64: test_test_gff_io > ................................................... Passed 0.00 sec > Start 66: test_test_graph_align > 63/95 Test #65: test_test_graph_algorithms > ......................................... Passed 0.01 sec > Start 67: test_test_graph_msa > 64/95 Test #66: test_test_graph_align > .............................................. Passed 0.00 sec > Start 68: test_test_graph_types > 65/95 Test #61: test_test_consensus > ................................................ Passed 0.01 sec > Start 69: test_test_index_creation > 66/95 Test #68: test_test_graph_types > .............................................. Passed 0.00 sec > Start 70: test_test_index_crosscompare_char > 67/95 Test #70: test_test_index_crosscompare_char > .................................. Passed 0.08 sec > Start 71: test_test_index_crosscompare_char_dfi > 68/95 Test #71: test_test_index_crosscompare_char_dfi > .............................. Passed 0.02 sec > Start 72: test_test_index_crosscompare_dna > 69/95 Test #72: test_test_index_crosscompare_dna > ................................... Passed 0.01 sec > Start 73: test_test_index_crosscompare_dna_dfi > 70/95 Test #73: test_test_index_crosscompare_dna_dfi > ............................... Passed 0.00 sec > Start 74: test_test_index_qgram > 71/95 Test #74: test_test_index_qgram > .............................................. Passed 0.00 sec > Start 75: test_test_index_sa_bwtwalk > 72/95 Test #67: test_test_graph_msa > ................................................ Passed 0.23 sec > Start 76: test_test_index_shapes > 73/95 Test #76: test_test_index_shapes > ............................................. Passed 0.00 sec > Start 77: test_test_index_drawing > 74/95 Test #77: test_test_index_drawing > ............................................ Passed 0.00 sec > Start 78: test_test_index_fm > 75/95 Test #63: test_test_find > ..................................................... Passed 0.39 sec > Start 79: test_test_index_stree_iterators > 76/95 Test #75: test_test_index_sa_bwtwalk > ......................................... Passed 0.27 sec > Start 80: test_test_index_repeats > 77/95 Test #80: test_test_index_repeats > ............................................ Passed 0.21 sec > Start 81: test_test_map > 78/95 Test #79: test_test_index_stree_iterators > ....................................***Exception: SegFault 0.61 sec > TEST SUITE test_index > SEQAN_ENABLE_DEBUG == 1 > SEQAN_ENABLE_TESTING == 1 > SEQAN_ENABLE_CHECKPOINTS == 0 > SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" > testEmptyIndex OK > testIssue509 OK > testIssue509b OK > parentEdgeLabel: > a parentEdgeLabel: a > aa parentEdgeLabel: a > aaacatatz parentEdgeLabel: acatatz > aacatatz parentEdgeLabel: catatz > aca parentEdgeLabel: ca > acaaacatatz parentEdgeLabel: aacatatz > acatatz parentEdgeLabel: tatz > at parentEdgeLabel: t > atatz parentEdgeLabel: atz > atz parentEdgeLabel: z > ca parentEdgeLabel: ca > caaacatatz parentEdgeLabel: aacatatz > catatz parentEdgeLabel: tatz > t parentEdgeLabel: t > tatz parentEdgeLabel: atz > tz parentEdgeLabel: z > z parentEdgeLabel: z > > Dir (wotd) > 0: 0 (LastChild/SENTINELS) > 1: 2 > 2: 0 > 3: 9 > 4: 6 > 5: 21 > 6: 8 > 7: 23 > 8: 10 (Leaf/Uneval) (LastChild/SENTINELS) > 9: 1 > 10: 15 > 11: 2 > 12: 17 > 13: 4 (LastChild/SENTINELS) > 14: 19 > 15: 2 (Leaf/Uneval) > 16: 1 (Leaf/Uneval) (LastChild/SENTINELS) > 17: 3 (Leaf/Uneval) > 18: 3 (Leaf/Uneval) (LastChild/SENTINELS) > 19: 2 (Leaf/Uneval) > 20: 5 (Leaf/Uneval) (LastChild/SENTINELS) > 21: 2 (Leaf/Uneval) > 22: 7 (Leaf/Uneval) (LastChild/SENTINELS) > 23: 1 (Leaf/Uneval) > 24: 9 (Leaf/Uneval) (LastChild/SENTINELS) > > SA > 0: 2 aaacatatz > 1: 3 aacatatz > 2: 0 acaaacatatz > 3: 4 acatatz > 4: 6 atatz > 5: 8 atz > 6: 1 caaacatatz > 7: 5 catatz > 8: 7 tatz > 9: 9 tz > 10: 10 z > > testSTreeIterators_Wotd OK > parentEdgeLabel: > a parentEdgeLabel: a > aca parentEdgeLabel: ca > acaaacatatz parentEdgeLabel: aacatatz > acatatz parentEdgeLabel: tatz > aa parentEdgeLabel: a > aaacatatz parentEdgeLabel: acatatz > aacatatz parentEdgeLabel: catatz > at parentEdgeLabel: t > atatz parentEdgeLabel: atz > atz parentEdgeLabel: z > ca parentEdgeLabel: ca > caaacatatz parentEdgeLabel: aacatatz > catatz parentEdgeLabel: tatz > t parentEdgeLabel: t > tatz parentEdgeLabel: atz > tz parentEdgeLabel: z > z parentEdgeLabel: z > > Dir (wotd) > 0: 0 (LastChild/SENTINELS) > 1: 2 > 2: 0 > 3: 9 > 4: 1 > 5: 21 > 6: 7 > 7: 23 > 8: 10 (Leaf/Uneval) (LastChild/SENTINELS) > 9: 1 > 10: 15 > 11: 3 > 12: 17 > 13: 7 (LastChild/SENTINELS) > 14: 19 > 15: 3 (Leaf/Uneval) > 16: 7 (Leaf/Uneval) (LastChild/SENTINELS) > 17: 4 (Leaf/Uneval) > 18: 5 (Leaf/Uneval) (LastChild/SENTINELS) > 19: 8 (Leaf/Uneval) > 20: 10 (Leaf/Uneval) (LastChild/SENTINELS) > 21: 3 (Leaf/Uneval) > 22: 7 (Leaf/Uneval) (LastChild/SENTINELS) > 23: 8 (Leaf/Uneval) > 24: 10 (Leaf/Uneval) (LastChild/SENTINELS) > > SA > 0: 4 acatatz > 1: 5 catatz > 2: 3 aacatatz > 3: 7 tatz > 4: 8 atz > 5: 10 z > 6: 3 aacatatz > 7: 7 tatz > 8: 8 atz > 9: 10 z > 10: 10 z > > testSTreeIterators_WotdOriginal OK > parentEdgeLabel: > a parentEdgeLabel: a > aa parentEdgeLabel: a > aaacatatz parentEdgeLabel: acatatz > aacatatz parentEdgeLabel: catatz > aca parentEdgeLabel: ca > acaaacatatz parentEdgeLabel: aacatatz > acatatz parentEdgeLabel: tatz > at parentEdgeLabel: t > atatz parentEdgeLabel: atz > atz parentEdgeLabel: z > ca parentEdgeLabel: ca > caaacatatz parentEdgeLabel: aacatatz > catatz parentEdgeLabel: tatz > t parentEdgeLabel: t > tatz parentEdgeLabel: atz > tz parentEdgeLabel: z > z parentEdgeLabel: z > > SA > 0: 2 aaacatatz > 1: 3 aacatatz > 2: 0 acaaacatatz > 3: 4 acatatz > 4: 6 atatz > 5: 8 atz > 6: 1 caaacatatz > 7: 5 catatz > 8: 7 tatz > 9: 9 tz > 10: 10 z > > LCP > 0: 2 > 1: 1 > 2: 3 > 3: 1 > 4: 2 > 5: 0 > 6: 2 > 7: 0 > 8: 1 > 9: 0 > 10: 0 > > Childtab > 0: 6 > 1: 1 > 2: 4 > 3: 3 > 4: 5 > 5: 2 > 6: 8 > 7: 7 > 8: 10 > 9: 9 > 10: 11 > > testSTreeIterators_Esa OK > testFind_Esa_Mlr OK > testCompareIndices_Esa_Wotd OK > BottomUp without empty edges > 1 AC > 2 AC > 1 C > 2 C > > BottomUp with empty edges > 1 AC > 1 AC > 2 AC > 1 C > 1 C > 2 C > > TopDown postorder without empty edges > 2 AC > 2 C > 4 > > TopDown postorder with empty edges > 1 AC > 1 AC > 2 AC > 1 C > 1 C > 2 C > 4 > > TopDown preorder without empty edges > 2 C > > TopDown preorder with empty edges > 4 > 2 AC > 1 AC > 1 AC > 2 C > 1 C > 1 C > > TopDown with empty edges > 4 > 2 AC > > TopDown with empty edges > 4 > 2 AC > 1 AC > testMultiIndex OK > > > stack trace: > 0 [0x55fc80c8cda9] > /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/bin/test_index_stree_iterators(+0x48da9) > 1 [0x7f00d04bafe0] /lib/x86_64-linux-gnu/libc.so.6(+0x39fe0) > 2 [0x55fc80d27f2e] seqan::_skew7ExtendComp<seqan::Triple<unsigned long, > seqan::Tuple<unsigned long, 3u, void>, seqan::Tuple<unsigned long, 5u, > seqan::Tag<seqan::Pack_> >, seqan::Tag<seqan::Pack_> >, 2u, > int>::operator()(seqan::Triple<unsigned long, seqan::Tuple<unsigned long, 3u, > void>, seqan::Tuple<unsigned long, 5u, seqan::Tag<seqan::Pack_> >, > seqan::Tag<seqan::Pack_> > const&, seqan::Triple<unsigned long, > seqan::Tuple<unsigned long, 3u, void>, seqan::Tuple<unsigned long, 5u, > seqan::Tag<seqan::Pack_> >, seqan::Tag<seqan::Pack_> > const&) const + 0x2e > 3 [0x55fc80d286b7] void std::__insertion_sort<seqan::Triple<unsigned > long, seqan::Tuple<unsigned long, 3u, void>, seqan::Tuple<unsigned long, 5u, > seqan::Tag<seqan::Pack_> >, seqan::Tag<seqan::Pack_> >*, > __gnu_cxx::__ops::_Iter_comp_iter<seqan::AdaptorCompare2Less<seqan::_skew7ExtendComp<seqan::Triple<unsigned > long, seqan::Tuple<unsigned long, 3u, void>, seqan::Tuple<unsigned long, 5u, > seqan::Tag<seqan::Pack_> >, seqan::Tag<seqan::Pack_> >, 2u, int> > > > >(seqan::Triple<unsigned long, seqan::Tuple<unsigned long, 3u, void>, > seqan::Tuple<unsigned long, 5u, seqan::Tag<seqan::Pack_> >, > seqan::Tag<seqan::Pack_> >*, seqan::Triple<unsigned long, > seqan::Tuple<unsigned long, 3u, void>, seqan::Tuple<unsigned long, 5u, > seqan::Tag<seqan::Pack_> >, seqan::Tag<seqan::Pack_> >*, > __gnu_cxx::__ops::_Iter_comp_iter<seqan::AdaptorCompare2Less<seqan::_skew7ExtendComp<seqan::Triple<unsigned > long, seqan::Tuple<unsigned long, 3u, void>, seqan::Tuple<unsigned long, 5u, > seqan::Tag<seqan::Pack_> >, seqan::Tag<seqan::Pack_> >, 2u, int> > >) + 0x67 > 4 [0x55fc80d2d7b5] > /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/bin/test_index_stree_iterators(+0xe97b5) > 5 [0x55fc80d4fd0b] bool > seqan::Pipe<seqan::Pipe<seqan::Pool<seqan::Pair<unsigned long, unsigned long, > seqan::Tag<seqan::Pack_> >, > seqan::MapperSpec<seqan::MapperConfigSize<seqan::filterI1<seqan::Pair<unsigned > long, unsigned long, seqan::Tag<seqan::Pack_> >, unsigned long>, unsigned > long, seqan::File<seqan::Async<void> > > > >, > seqan::Filter<seqan::filterI2<seqan::Pair<unsigned long, unsigned long, > seqan::Tag<seqan::Pack_> >, unsigned long> > >, > seqan::Skew7>::process<seqan::Pipe<seqan::Pool<seqan::Pair<unsigned long, > unsigned long, seqan::Tag<seqan::Pack_> >, > seqan::MapperSpec<seqan::MapperConfigSize<seqan::filterI1<seqan::Pair<unsigned > long, unsigned long, seqan::Tag<seqan::Pack_> >, unsigned long>, unsigned > long, seqan::File<seqan::Async<void> > > > >, > seqan::Filter<seqan::filterI2<seqan::Pair<unsigned long, unsigned long, > seqan::Tag<seqan::Pack_> >, unsigned long> > > > >(seqan::Pipe<seqan::Pool<seqan::Pair<unsigned long, unsigned long, > seqan::Tag<seqan::Pack_> >, > seqan::MapperSpec<seqan::MapperConfigSize<seqan::filterI1<seqan::Pair<unsigned > long, unsigned long, seqan::Tag<seqan::Pack_> >, unsigned long>, unsigned > long, seqan::File<seqan::Async<void> > > > >, > seqan::Filter<seqan::filterI2<seqan::Pair<unsigned long, unsigned long, > seqan::Tag<seqan::Pack_> >, unsigned long> > >&) + 0x72b > 6 [0x55fc80d52823] > seqan::Pipe<seqan::Pipe<seqan::Pool<seqan::Pair<unsigned long, unsigned long, > seqan::Tag<seqan::Pack_> >, > seqan::MapperSpec<seqan::MapperConfigSize<seqan::filterI1<seqan::Pair<unsigned > long, unsigned long, seqan::Tag<seqan::Pack_> >, unsigned long>, unsigned > long, seqan::File<seqan::Async<void> > > > >, > seqan::Filter<seqan::filterI2<seqan::Pair<unsigned long, unsigned long, > seqan::Tag<seqan::Pack_> >, unsigned long> > >, > seqan::Skew7>::Pipe(seqan::Pipe<seqan::Pool<seqan::Pair<unsigned long, > unsigned long, seqan::Tag<seqan::Pack_> >, > seqan::MapperSpec<seqan::MapperConfigSize<seqan::filterI1<seqan::Pair<unsigned > long, unsigned long, seqan::Tag<seqan::Pack_> >, unsigned long>, unsigned > long, seqan::File<seqan::Async<void> > > > >, > seqan::Filter<seqan::filterI2<seqan::Pair<unsigned long, unsigned long, > seqan::Tag<seqan::Pack_> >, unsigned long> > >&) + 0x6a3 > 7 [0x55fc80d66bf9] bool > seqan::Pipe<seqan::Pipe<seqan::Pipe<seqan::String<char, seqan::Alloc<void> >, > seqan::Source<void> >, seqan::Caster<unsigned char, seqan::CasterReinterpret> > >, seqan::Multi<seqan::Skew7, seqan::Pair<unsigned long, unsigned long, > seqan::Tag<seqan::Pack_> >, seqan::String<unsigned long, seqan::Alloc<void> > > > >::process<seqan::Pipe<seqan::Pipe<seqan::String<char, seqan::Alloc<void> > >, seqan::Source<void> >, seqan::Caster<unsigned char, > seqan::CasterReinterpret> > >(seqan::Pipe<seqan::Pipe<seqan::String<char, > seqan::Alloc<void> >, seqan::Source<void> >, seqan::Caster<unsigned char, > seqan::CasterReinterpret> >&) + 0xb79 > 8 [0x55fc80d67609] > seqan::Pipe<seqan::Pipe<seqan::Pipe<seqan::String<char, seqan::Alloc<void> >, > seqan::Source<void> >, seqan::Caster<unsigned char, seqan::CasterReinterpret> > >, seqan::Multi<seqan::Skew7, seqan::Pair<unsigned long, unsigned long, > seqan::Tag<seqan::Pack_> >, seqan::String<unsigned long, seqan::Alloc<void> > > > >::Pipe<seqan::String<unsigned long, seqan::Alloc<void> > > >(seqan::Pipe<seqan::Pipe<seqan::String<char, seqan::Alloc<void> >, > seqan::Source<void> >, seqan::Caster<unsigned char, seqan::CasterReinterpret> > >&, seqan::String<unsigned long, seqan::Alloc<void> > const&, > seqan::EnableIf<seqan::IsSameType<seqan::String<unsigned long, > seqan::Alloc<void> >, seqan::String<unsigned long, seqan::Alloc<void> > >, > void>::Type*) + 0x609 > 9 [0x55fc80c95960] > /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/bin/test_index_stree_iterators(+0x51960) > 10 [0x55fc80d676c0] void > seqan::_indexRequireBottomUpIteration<seqan::StringSet<seqan::String<char, > seqan::Alloc<void> >, seqan::Owner<seqan::ConcatDirect<void> > >, > void>(seqan::Index<seqan::StringSet<seqan::String<char, seqan::Alloc<void> >, > seqan::Owner<seqan::ConcatDirect<void> > >, seqan::IndexEsa<void> >&) + 0x70 > 11 [0x55fc80d67a7f] void seqan::SEQAN_TEST_testMUMs<true>() + 0x2ff > 12 [0x55fc80c89a6a] main + 0x1da > 13 [0x7f00d04a7bbb] __libc_start_main + 0xeb > 14 [0x55fc80c89c8a] _start + 0x2a > > > Start 82: test_test_misc > 79/95 Test #82: test_test_misc > ..................................................... Passed 0.01 sec > Start 83: test_test_misc_cmdparser > 80/95 Test #83: test_test_misc_cmdparser > ........................................... Passed 0.00 sec > Start 84: test_test_modifier > 81/95 Test #84: test_test_modifier > ................................................. Passed 0.00 sec > Start 85: test_test_parallel > 82/95 Test #85: test_test_parallel > ................................................. Passed 0.02 sec > Start 86: test_test_pipe > 83/95 Test #81: test_test_map > ...................................................... Passed 0.51 sec > Start 87: test_test_random > 84/95 Test #87: test_test_random > ................................................... Passed 0.02 sec > Start 88: test_test_score > 85/95 Test #88: test_test_score > .................................................... Passed 0.01 sec > Start 89: test_test_seeds > 86/95 Test #89: test_test_seeds > .................................................... Passed 0.04 sec > Start 90: test_test_seq_io > 87/95 Test #90: test_test_seq_io > ................................................... Passed 0.02 sec > Start 91: test_test_sequence > 88/95 Test #91: test_test_sequence > ................................................. Passed 0.01 sec > Start 92: test_test_sequence_journaled > 89/95 Test #92: test_test_sequence_journaled > ....................................... Passed 0.03 sec > Start 93: test_test_store > 90/95 Test #93: test_test_store > .................................................... Passed 0.33 sec > Start 94: test_test_stream > 91/95 Test #86: test_test_pipe > ..................................................... Passed 0.64 sec > Start 95: test_test_find_swift > 92/95 Test #95: test_test_find_swift > ............................................... Passed 0.00 sec > 93/95 Test #94: test_test_stream > ................................................... Passed 5.13 sec > 94/95 Test #69: test_test_index_creation > ........................................... Passed 8.57 sec > 95/95 Test #78: test_test_index_fm > .................................................***Exception: SegFault 10.70 > sec > TEST SUITE test_fm_index_beta > SEQAN_ENABLE_DEBUG == 1 > SEQAN_ENABLE_TESTING == 1 > SEQAN_ENABLE_CHECKPOINTS == 0 > SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" > test_rsbs_defaultConstructor OK > test_rsbs_resize OK > test_rsbs_getBuPos OK > test_rsbs_getSBuPos OK > test_rsbs_getPosInBu OK > test_rsbs_isBitSet OK > test_rsbs_append_value OK > test_rsbs_rank OK > test_rsbs_update_ranks_ OK > test_rsbs_constructor OK > test_rsbs_equalOperator OK > test_rsbs_assignOperator OK > test_rsbs_open_save OK > test_rsbs_iterator_get_value OK > prefix_sum_table_constructor OK > prefix_sum_table_get_alphabet_size OK > prefix_sum_table_get_character_position OK > prefix_sum_table_get_character OK > prefix_sum_table_determine_sentinel_substitute OK > prefix_sum_table_get_pivot_position OK > prefix_sum_table_prefix_sum OK > prefix_sum_table_get_value OK > prefix_sum_table_length OK > prefix_sum_table_insert_sentinel_ OK > prefix_sum_table_resize OK > prefix_sum_table_set_prefix_sum OK > prefix_sum_table_value OK > prefix_sum_table_open_save OK > wavelet_tree_structure_constructor OK > wavelet_tree_structure_clear OK > wavelet_tree_structure_empty OK > wavelet_tree_structure_get_fibre OK > wavelet_tree_structure_length OK > wavelet_tree_structure_resize OK > wavelet_tree_structure_open_save OK > wavelet_tree_structure_iterator_begin OK > wavelet_tree_structure_iterator_container OK > wavelet_tree_structure_iterator_end OK > wavelet_tree_structure_iterator_get_character OK > wavelet_tree_structure_iterator_get_child_pos OK > wavelet_tree_structure_iterator_get_num_child_vertices OK > wavelet_tree_structure_iterator_get_position OK > wavelet_tree_structure_iterator_go_child OK > wavelet_tree_structure_iterator_go_down OK > wavelet_tree_structure_iterator_go_right OK > wavelet_tree_structure_iterator_go_to_position OK > wavelet_tree_structure_iterator_go_up OK > wavelet_tree_structure_iterator_is_leaf OK > wavelet_tree_structure_iterator_is_root OK > wavelet_tree_structure_iterator_set_and_go_right OK > wavelet_tree_structure_iterator_set_character OK > wavelet_tree_structure_iterator_set_child_vertices_ OK > wavelet_tree_structure_iterator_set_left_child_pos_ OK > wavelet_tree_structure_iterator_set_position_ OK > wavelet_tree_structure_iterator_set_right_child_pos_ OK > sparse_string_get_value OK > sparse_string_clear_length_resize OK > sparse_string_empty OK > sparse_string_get_fibre OK > compressed_sa_clear_length_resize OK > compressed_sa_empty OK > compressed_sa_create_compressed_sa OK > compressed_sa_get_fibre OK > compressed_sa_get_next_pos_ OK > compressed_sa_set_lf_table OK > compressed_sa_value_access OK > compressed_sa_open_save OK > compressed_sa_iterator_begin OK > compressed_sa_iterator_end OK > test_lf_table_lf_mapping OK > test_fm_index_constructor OK > test_fm_index_clear OK > test_fm_index_determine_sentinel_substitute_ OK > test_fm_index_empty OK > test_fm_index_find_first_index_ OK > test_fm_index_get_fibre OK > > > stack trace: > 0 [0x55eb2e19af09] > /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/bin/test_index_fm(+0xc5f09) > 1 [0x7fadd258dfe0] /lib/x86_64-linux-gnu/libc.so.6(+0x39fe0) > 2 [0x55eb2e32901e] seqan::_skew7ExtendComp<seqan::Triple<unsigned long, > seqan::Tuple<unsigned long, 3u, void>, seqan::Tuple<unsigned long, 5u, > seqan::Tag<seqan::Pack_> >, seqan::Tag<seqan::Pack_> >, 2u, > int>::operator()(seqan::Triple<unsigned long, seqan::Tuple<unsigned long, 3u, > void>, seqan::Tuple<unsigned long, 5u, seqan::Tag<seqan::Pack_> >, > seqan::Tag<seqan::Pack_> > const&, seqan::Triple<unsigned long, > seqan::Tuple<unsigned long, 3u, void>, seqan::Tuple<unsigned long, 5u, > seqan::Tag<seqan::Pack_> >, seqan::Tag<seqan::Pack_> > const&) const + 0x2e > 3 [0x55eb2e329c95] void std::__introsort_loop<seqan::Triple<unsigned > long, seqan::Tuple<unsigned long, 3u, void>, seqan::Tuple<unsigned long, 5u, > seqan::Tag<seqan::Pack_> >, seqan::Tag<seqan::Pack_> >*, long, > __gnu_cxx::__ops::_Iter_comp_iter<seqan::AdaptorCompare2Less<seqan::_skew7ExtendComp<seqan::Triple<unsigned > long, seqan::Tuple<unsigned long, 3u, void>, seqan::Tuple<unsigned long, 5u, > seqan::Tag<seqan::Pack_> >, seqan::Tag<seqan::Pack_> >, 2u, int> > > > >(seqan::Triple<unsigned long, seqan::Tuple<unsigned long, 3u, void>, > seqan::Tuple<unsigned long, 5u, seqan::Tag<seqan::Pack_> >, > seqan::Tag<seqan::Pack_> >*, seqan::Triple<unsigned long, > seqan::Tuple<unsigned long, 3u, void>, seqan::Tuple<unsigned long, 5u, > seqan::Tag<seqan::Pack_> >, seqan::Tag<seqan::Pack_> >*, long, > __gnu_cxx::__ops::_Iter_comp_iter<seqan::AdaptorCompare2Less<seqan::_skew7ExtendComp<seqan::Triple<unsigned > long, seqan::Tuple<unsigned long, 3u, void>, seqan::Tuple<unsigned long, 5u, > seqan::Tag<seqan::Pack_> >, seqan::Tag<seqan::Pack_> >, 2u, int> > >) + 0x65 > 4 [0x55eb2e32d6fe] > /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/bin/test_index_fm(+0x2586fe) > 5 [0x55eb2e3874a7] bool > seqan::Pipe<seqan::Pipe<seqan::Pool<seqan::Pair<unsigned long, unsigned long, > seqan::Tag<seqan::Pack_> >, > seqan::MapperSpec<seqan::MapperConfigSize<seqan::filterI1<seqan::Pair<unsigned > long, unsigned long, seqan::Tag<seqan::Pack_> >, unsigned long>, unsigned > long, seqan::File<seqan::Async<void> > > > >, > seqan::Filter<seqan::filterI2<seqan::Pair<unsigned long, unsigned long, > seqan::Tag<seqan::Pack_> >, unsigned long> > >, > seqan::Skew7>::process<seqan::Pipe<seqan::Pool<seqan::Pair<unsigned long, > unsigned long, seqan::Tag<seqan::Pack_> >, > seqan::MapperSpec<seqan::MapperConfigSize<seqan::filterI1<seqan::Pair<unsigned > long, unsigned long, seqan::Tag<seqan::Pack_> >, unsigned long>, unsigned > long, seqan::File<seqan::Async<void> > > > >, > seqan::Filter<seqan::filterI2<seqan::Pair<unsigned long, unsigned long, > seqan::Tag<seqan::Pack_> >, unsigned long> > > > >(seqan::Pipe<seqan::Pool<seqan::Pair<unsigned long, unsigned long, > seqan::Tag<seqan::Pack_> >, > seqan::MapperSpec<seqan::MapperConfigSize<seqan::filterI1<seqan::Pair<unsigned > long, unsigned long, seqan::Tag<seqan::Pack_> >, unsigned long>, unsigned > long, seqan::File<seqan::Async<void> > > > >, > seqan::Filter<seqan::filterI2<seqan::Pair<unsigned long, unsigned long, > seqan::Tag<seqan::Pack_> >, unsigned long> > >&) + 0x4f7 > 6 [0x55eb2e388673] > seqan::Pipe<seqan::Pipe<seqan::Pool<seqan::Pair<unsigned long, unsigned long, > seqan::Tag<seqan::Pack_> >, > seqan::MapperSpec<seqan::MapperConfigSize<seqan::filterI1<seqan::Pair<unsigned > long, unsigned long, seqan::Tag<seqan::Pack_> >, unsigned long>, unsigned > long, seqan::File<seqan::Async<void> > > > >, > seqan::Filter<seqan::filterI2<seqan::Pair<unsigned long, unsigned long, > seqan::Tag<seqan::Pack_> >, unsigned long> > >, > seqan::Skew7>::Pipe(seqan::Pipe<seqan::Pool<seqan::Pair<unsigned long, > unsigned long, seqan::Tag<seqan::Pack_> >, > seqan::MapperSpec<seqan::MapperConfigSize<seqan::filterI1<seqan::Pair<unsigned > long, unsigned long, seqan::Tag<seqan::Pack_> >, unsigned long>, unsigned > long, seqan::File<seqan::Async<void> > > > >, > seqan::Filter<seqan::filterI2<seqan::Pair<unsigned long, unsigned long, > seqan::Tag<seqan::Pack_> >, unsigned long> > >&) + 0x6a3 > 7 [0x55eb2e389259] bool > seqan::Pipe<seqan::Pipe<seqan::Pipe<seqan::ConcatenatorManyToOne<seqan::StringSet<seqan::String<seqan::SimpleType<unsigned > char, seqan::Dna_>, seqan::Alloc<void> >, > seqan::Owner<seqan::Tag<seqan::Default_> > > >, seqan::Source<void> >, > seqan::Caster<seqan::SimpleType<unsigned char, seqan::Dna_>, > seqan::CasterReinterpret> >, seqan::Multi<seqan::Skew7, seqan::Pair<unsigned > long, unsigned long, seqan::Tag<seqan::Pack_> >, seqan::String<unsigned long, > seqan::Alloc<void> > > > >::process<seqan::Pipe<seqan::Pipe<seqan::ConcatenatorManyToOne<seqan::StringSet<seqan::String<seqan::SimpleType<unsigned > char, seqan::Dna_>, seqan::Alloc<void> >, > seqan::Owner<seqan::Tag<seqan::Default_> > > >, seqan::Source<void> >, > seqan::Caster<seqan::SimpleType<unsigned char, seqan::Dna_>, > seqan::CasterReinterpret> > > >(seqan::Pipe<seqan::Pipe<seqan::ConcatenatorManyToOne<seqan::StringSet<seqan::String<seqan::SimpleType<unsigned > char, seqan::Dna_>, seqan::Alloc<void> >, > seqan::Owner<seqan::Tag<seqan::Default_> > > >, seqan::Source<void> >, > seqan::Caster<seqan::SimpleType<unsigned char, seqan::Dna_>, > seqan::CasterReinterpret> >&) + 0xb99 > 8 [0x55eb2e389e1f] > seqan::Pipe<seqan::Pipe<seqan::Pipe<seqan::ConcatenatorManyToOne<seqan::StringSet<seqan::String<seqan::SimpleType<unsigned > char, seqan::Dna_>, seqan::Alloc<void> >, > seqan::Owner<seqan::Tag<seqan::Default_> > > >, seqan::Source<void> >, > seqan::Caster<seqan::SimpleType<unsigned char, seqan::Dna_>, > seqan::CasterReinterpret> >, seqan::Multi<seqan::Skew7, seqan::Pair<unsigned > long, unsigned long, seqan::Tag<seqan::Pack_> >, seqan::String<unsigned long, > seqan::Alloc<void> > > >::Pipe<seqan::String<unsigned long, > seqan::Alloc<void> > > >(seqan::Pipe<seqan::Pipe<seqan::ConcatenatorManyToOne<seqan::StringSet<seqan::String<seqan::SimpleType<unsigned > char, seqan::Dna_>, seqan::Alloc<void> >, > seqan::Owner<seqan::Tag<seqan::Default_> > > >, seqan::Source<void> >, > seqan::Caster<seqan::SimpleType<unsigned char, seqan::Dna_>, > seqan::CasterReinterpret> >&, seqan::String<unsigned long, seqan::Alloc<void> > > const&, seqan::EnableIf<seqan::IsSameType<seqan::String<unsigned long, > seqan::Alloc<void> >, seqan::String<unsigned long, seqan::Alloc<void> > >, > void>::Type*) + 0x5cf > 9 [0x55eb2e1a6e44] > /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/bin/test_index_fm(+0xd1e44) > 10 [0x55eb2e393917] void > fmIndexSearch<seqan::StringSet<seqan::String<seqan::SimpleType<unsigned char, > seqan::Dna_>, seqan::Alloc<void> >, seqan::Owner<seqan::Tag<seqan::Default_> > > >, seqan::WT<void>, > void>(seqan::Index<seqan::StringSet<seqan::String<seqan::SimpleType<unsigned > char, seqan::Dna_>, seqan::Alloc<void> >, > seqan::Owner<seqan::Tag<seqan::Default_> > >, seqan::FMIndex<seqan::WT<void>, > void> >) + 0x27b7 > 11 [0x55eb2e3b7c22] void SEQAN_TEST_test_fm_index_search<true>() + 0x482 > 12 [0x55eb2e1915d1] main + 0xfd1 > 13 [0x7fadd257abbb] __libc_start_main + 0xeb > 14 [0x55eb2e191d6a] _start + 0x2a > > > > 98% tests passed, 2 tests failed out of 95 > > Total Test time (real) = 11.33 sec > > The following tests FAILED: > 78 - test_test_index_fm (SEGFAULT) > 79 - test_test_index_stree_iterators (SEGFAULT) > Errors while running CTest > make[2]: *** [Makefile:87: test] Error 8 > make[2]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu' > dh_auto_test: error: cd obj-x86_64-linux-gnu && make -j4 test ARGS\+=-j4 > returned exit code 2 The full build log is available from: http://qa-logs.debian.net/2020/02/22/seqan_1.4.2+dfsg-3_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.
