Source: seqan Version: 1.4.2+dfsg-4 Severity: serious Justification: FTBFS on amd64 Tags: bullseye sid ftbfs Usertags: ftbfs-20210120 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 > 1/93 Test #1: test_demo_align_align > .............................................. Passed 0.05 sec > Start 5: test_demo_align_global_alignment_unbanded > 2/93 Test #2: test_demo_align_compute_alignment_stats > ............................ Passed 0.05 sec > Start 6: test_demo_align_integrate_align > 3/93 Test #4: test_demo_align_global_alignment_banded > ............................ Passed 0.05 sec > Start 7: test_demo_bam_io_bam_stream > 4/93 Test #3: test_demo_align_gaps_example > ....................................... Passed 0.05 sec > Start 8: test_demo_find_finder_index > 5/93 Test #5: test_demo_align_global_alignment_unbanded > .......................... Passed 0.05 sec > Start 9: test_demo_find_finder_online > 6/93 Test #6: test_demo_align_integrate_align > .................................... Passed 0.05 sec > Start 10: test_demo_graph_graph_algo_dijkstra > 7/93 Test #7: test_demo_bam_io_bam_stream > ........................................***Failed 0.05 sec > Loading files "/<<PKGBUILDDIR>>/core/demos/bam_io/bam_stream.cpp.stdout", > "None". > Running /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/bin/demo_bam_io_bam_stream. > ERROR: Return code of > /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/bin/demo_bam_io_bam_stream was 1. > > Start 11: test_demo_graph_algorithms_all_pairs_shortest_path > 8/93 Test #8: test_demo_find_finder_index > ........................................ Passed 0.05 sec > Start 12: test_demo_graph_algorithms_bellman_ford_algorithm > 9/93 Test #9: test_demo_find_finder_online > ....................................... Passed 0.05 sec > Start 13: test_demo_graph_algorithms_breadth_first_search > 10/93 Test #10: test_demo_graph_graph_algo_dijkstra > ................................ Passed 0.05 sec > Start 14: test_demo_graph_algorithms_dag_shortest_path > 11/93 Test #11: test_demo_graph_algorithms_all_pairs_shortest_path > ................. Passed 0.05 sec > Start 15: test_demo_graph_algorithms_depth_first_search > 12/93 Test #12: test_demo_graph_algorithms_bellman_ford_algorithm > .................. Passed 0.05 sec > Start 16: test_demo_graph_algorithms_dijkstra > 13/93 Test #13: test_demo_graph_algorithms_breadth_first_search > .................... Passed 0.05 sec > Start 17: test_demo_graph_algorithms_floyd_warshall_algorithm > 14/93 Test #14: test_demo_graph_algorithms_dag_shortest_path > ....................... Passed 0.05 sec > Start 18: test_demo_graph_algorithms_ford_fulkerson_algorithm > 15/93 Test #15: test_demo_graph_algorithms_depth_first_search > ...................... Passed 0.05 sec > Start 19: test_demo_graph_algorithms_kruskals_algorithm > 16/93 Test #16: test_demo_graph_algorithms_dijkstra > ................................ Passed 0.05 sec > Start 20: test_demo_graph_algorithms_prims_algorithm > 17/93 Test #17: test_demo_graph_algorithms_floyd_warshall_algorithm > ................ Passed 0.05 sec > Start 21: test_demo_graph_algorithms_strongly_connected_components > 18/93 Test #18: test_demo_graph_algorithms_ford_fulkerson_algorithm > ................ Passed 0.05 sec > Start 22: test_demo_graph_algorithms_topological_sort > 19/93 Test #19: test_demo_graph_algorithms_kruskals_algorithm > ...................... Passed 0.05 sec > Start 23: test_demo_graph_algorithms_transitive_closure > 20/93 Test #20: test_demo_graph_algorithms_prims_algorithm > ......................... Passed 0.05 sec > Start 24: test_demo_index_index_begin_atEnd_representative > 21/93 Test #21: test_demo_graph_algorithms_strongly_connected_components > ........... Passed 0.05 sec > Start 25: test_demo_index_index_counting > 22/93 Test #22: test_demo_graph_algorithms_topological_sort > ........................ Passed 0.05 sec > Start 26: test_demo_index_index_finder > 23/93 Test #23: test_demo_graph_algorithms_transitive_closure > ...................... Passed 0.05 sec > Start 27: > test_demo_index_index_getOccurrences_getFrequency_range_getFibre > 24/93 Test #24: test_demo_index_index_begin_atEnd_representative > ................... Passed 0.05 sec > Start 28: test_demo_index_index_iterator > 25/93 Test #25: test_demo_index_index_counting > ..................................... Passed 0.05 sec > Start 29: test_demo_index_index_iterator_short > 26/93 Test #26: test_demo_index_index_finder > ....................................... Passed 0.05 sec > Start 30: test_demo_index_index_length_countSequences > 27/93 Test #27: > test_demo_index_index_getOccurrences_getFrequency_range_getFibre ... Passed > 0.05 sec > Start 31: test_demo_index_index_mummy > 28/93 Test #28: test_demo_index_index_iterator > ..................................... Passed 0.05 sec > Start 32: test_demo_index_index_open_save > 29/93 Test #29: test_demo_index_index_iterator_short > ............................... Passed 0.05 sec > Start 33: test_demo_index_index_textAt_indexText_saAt_indexRequire > 30/93 Test #30: test_demo_index_index_length_countSequences > ........................ Passed 0.05 sec > Start 34: test_demo_input_output_record_reader > 31/93 Test #31: test_demo_index_index_mummy > ........................................ Passed 0.05 sec > Start 35: test_demo_misc_enumerate_strings > 32/93 Test #32: test_demo_index_index_open_save > .................................... Passed 0.05 sec > Start 36: test_demo_modifier_modified_string > 33/93 Test #33: test_demo_index_index_textAt_indexText_saAt_indexRequire > ........... Passed 0.05 sec > Start 37: test_demo_modifier_modified_string_mod_view > 34/93 Test #34: test_demo_input_output_record_reader > ............................... Passed 0.05 sec > Start 38: test_demo_modifier_modified_string_nested > 35/93 Test #35: test_demo_misc_enumerate_strings > ................................... Passed 0.05 sec > Start 39: test_demo_score_score > 36/93 Test #36: test_demo_modifier_modified_string > ................................. Passed 0.05 sec > Start 40: test_demo_seeds_seeds_extension > 37/93 Test #37: test_demo_modifier_modified_string_mod_view > ........................ Passed 0.05 sec > Start 41: test_demo_seq_io_fai_index_example > 38/93 Test #38: test_demo_modifier_modified_string_nested > .......................... Passed 0.05 sec > Start 42: test_demo_seq_io_sequence_stream_read > 39/93 Test #39: test_demo_score_score > .............................................. Passed 0.05 sec > Start 43: test_demo_sequence_string2 > 40/93 Test #40: test_demo_seeds_seeds_extension > .................................... Passed 0.05 sec > Start 44: test_demo_sequence_stringset > 41/93 Test #42: test_demo_seq_io_sequence_stream_read > ..............................***Failed 0.05 sec > Loading files > "/<<PKGBUILDDIR>>/core/demos/seq_io/sequence_stream_read.cpp.stdout", "None". > Running > /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/bin/demo_seq_io_sequence_stream_read. > ERROR: Return code of > /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/bin/demo_seq_io_sequence_stream_read > was 1. > > Start 45: test_test_align > 42/93 Test #41: test_demo_seq_io_fai_index_example > .................................***Failed 0.05 sec > Loading files > "/<<PKGBUILDDIR>>/core/demos/seq_io/fai_index_example.cpp.stdout", "None". > Running > /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/bin/demo_seq_io_fai_index_example. > ERROR: Return code of > /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/bin/demo_seq_io_fai_index_example was 1. > > Start 46: test_test_arg_parse > 43/93 Test #43: test_demo_sequence_string2 > ......................................... Passed 0.05 sec > Start 47: test_test_bam_io > 44/93 Test #44: test_demo_sequence_stringset > ....................................... Passed 0.05 sec > Start 48: test_test_basic_exception > 45/93 Test #46: test_test_arg_parse > ................................................***Failed 0.00 sec > TEST SUITE test_arg_parse > SEQAN_ENABLE_DEBUG == 1 > SEQAN_ENABLE_TESTING == 1 > SEQAN_ENABLE_CHECKPOINTS == 0 > SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" > test_unset_value OK > test_unset_values OK > test_int_short_argument OK > test_int_long_argument OK > test_non_int_argument OK > test_int64_short_argument OK > test_int64_long_argument OK > test_non_int64_argument OK > test_double_short_argument OK > test_double_long_argument OK > test_non_double_argument OK > test_double_scientific_notation OK > test_string_short_argument OK > test_string_long_argument OK > test_string_missing_argument OK > test_string_list OK > test_min_max_double_values_in_range OK > test_min_max_double_values_to_small OK > test_min_max_double_values_to_big OK > test_min_max_int_values_in_range OK > test_min_max_int_values_to_small OK > test_min_max_int_values_to_big OK > test_allowed_values_contained OK > test_allowed_values_not_contained OK > test_input_file_short OK > test_input_file_long OK > test_input_file_missing OK > test_input_file_invalid_type OK > test_input_file_valid_type OK > test_input_file_extension OK > test_input_file_auto_file_ext_option OK > test_output_file_short OK > test_output_file_long OK > test_output_file_missing OK > test_output_file_invalid_type OK > test_output_file_valid_type OK > test_output_file_extension OK > test_output_file_extension_targz OK > test_output_file_explicit_extension_valid OK > test_output_file_explicit_extension_invalid OK > test_argument_string OK > test_argument_not_all_set OK > test_argument_double OK > test_argument_not_a_double OK > test_argument_auto_file_ext_option OK > test_int_list_option OK > test_double_list_option OK > test_double_list_option_not_enough_arguments OK > test_boolean_flags OK > test_combined_boolean_flags OK > test_long_short_flag_name OK > test_argument_string_label OK > test_argument_int_label OK > test_argument_double_label OK > test_argument_inputfile_label OK > test_argument_outputfile_label OK > test_argument_user_defined_label OK > test_argument_invalid_cast OK > test_argument_min_max_boundaries OK > test_argument_valid_values OK > test_argument_parser OK > test_default_value OK > test_isDouble OK > test_isInt OK > Couldn't open file "./core/tests/arg_parse/test_app.ctd" > ./core/tests/arg_parse/test_arg_parse_ctd_support.h:98 Assertion failed : > seqan::_compareTextFilesAlt(toCString(outPath), toCString(goldPath)) should > be true but was 0 > > stack trace: > 0 [0x55b965f78ee5] seqan::ClassTest::fail() + 0x15 > 1 [0x55b965fa9328] void SEQAN_TEST_test_arg_parse_ctd_support<true>() + > 0x1408 > 2 [0x55b965f72904] main + 0x5a4 > 3 [0x7fc049257d0a] __libc_start_main + 0xea > 4 [0x55b965f72c9a] _start + 0x2a > > test_arg_parse_ctd_support FAILED > ************************************** > Total Check Points : 0 > Found Check Points : 0 > Lost Check Points : 0 > -------------------------------------- > Total Tests: 65 > Skipped: 0 > Errors: 1 > ************************************** > > Start 49: test_test_basic_metaprogramming > 46/93 Test #47: test_test_bam_io > ...................................................***Failed 0.01 sec > TEST SUITE test_bam_io > SEQAN_ENABLE_DEBUG == 1 > SEQAN_ENABLE_TESTING == 1 > SEQAN_ENABLE_CHECKPOINTS == 0 > SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" > test_bam_io_bam_alignment_record_class OK > test_bam_io_bam_alignment_record_has_flag_multiple OK > test_bam_io_bam_alignment_record_has_flag_unmapped OK > test_bam_io_bam_alignment_record_has_flag_next_unmapped OK > test_bam_io_bam_alignment_record_has_flag_rc OK > test_bam_io_bam_alignment_record_has_flag_next_rc OK > test_bam_io_bam_alignment_record_has_flag_first OK > test_bam_io_bam_alignment_record_has_flag_last OK > test_bam_io_bam_alignment_record_has_flag_secondary OK > test_bam_io_bam_alignment_record_has_flag_qc_no_pass OK > test_bam_io_bam_alignment_record_has_flag_duplicate OK > test_bam_io_bam_alignment_record_has_flag_supplementary OK > test_bam_io_bam_header_class OK > test_bam_io_bam_header_typedefs OK > test_bam_io_bam_header_record_class OK > test_bam_io_bam_header_record_typedefs OK > test_bam_io_bam_header_record_find_tag_key OK > test_bam_io_bam_header_record_get_tag_value OK > test_bam_io_bam_io_context_standalone OK > test_bam_io_bam_io_context_fragment_store OK > test_assign_tags_bam_to_sam_two_tags OK > test_assign_tags_bam_to_sam_type_A OK > test_assign_tags_bam_to_sam_type_c OK > test_assign_tags_bam_to_sam_type_C OK > test_assign_tags_bam_to_sam_type_s OK > test_assign_tags_bam_to_sam_type_S OK > test_assign_tags_bam_to_sam_type_i OK > test_assign_tags_bam_to_sam_type_I OK > test_assign_tags_bam_to_sam_type_f OK > test_assign_tags_bam_to_sam_type_Z OK > test_assign_tags_bam_to_sam_type_H OK > test_assign_tags_bam_to_sam_type_Bc OK > test_assign_tags_bam_to_sam_type_BC OK > test_assign_tags_bam_to_sam_type_Bs OK > test_assign_tags_bam_to_sam_type_BS OK > test_assign_tags_bam_to_sam_type_Bi OK > test_assign_tags_bam_to_sam_type_BI OK > test_assign_tags_bam_to_sam_type_Bf OK > test_assign_tags_sam_to_bam_two_tags OK > test_assign_tags_sam_to_bam_type_A OK > test_assign_tags_sam_to_bam_type_i OK > test_assign_tags_sam_to_bam_type_f OK > test_assign_tags_sam_to_bam_type_Z OK > test_assign_tags_sam_to_bam_type_H OK > test_assign_tags_sam_to_bam_type_Bc OK > test_assign_tags_sam_to_bam_type_BC OK > test_assign_tags_sam_to_bam_type_Bs OK > test_assign_tags_sam_to_bam_type_BS OK > test_assign_tags_sam_to_bam_type_Bi OK > test_assign_tags_sam_to_bam_type_BI OK > test_assign_tags_sam_to_bam_type_Bf OK > test_bam_tags_dict_get_type_size OK > test_bam_tags_dict_get_type OK > test_bam_tags_dict_length OK > test_bam_tags_dict_extract_value_type_A OK > test_bam_tags_dict_extract_value_type_c OK > test_bam_tags_dict_extract_value_type_C OK > test_bam_tags_dict_extract_value_type_s OK > test_bam_tags_dict_extract_value_type_S OK > test_bam_tags_dict_extract_value_type_i OK > test_bam_tags_dict_extract_value_type_I OK > test_bam_tags_dict_get_value_type_A OK > test_bam_tags_dict_get_value_type_c OK > test_bam_tags_dict_get_value_type_C OK > test_bam_tags_dict_get_value_type_s OK > test_bam_tags_dict_get_value_type_S OK > test_bam_tags_dict_get_value_type_i OK > test_bam_tags_dict_get_value_type_I OK > test_bam_tags_dict_get_value_type_f OK > test_bam_tags_dict_get_value_type_Z OK > test_bam_tags_dict_get_value_type_H OK > test_bam_tags_dict_get_value_type_Bc OK > test_bam_tags_dict_get_value_type_BC OK > test_bam_tags_dict_get_value_type_Bs OK > test_bam_tags_dict_get_value_type_BS OK > test_bam_tags_dict_get_value_type_Bi OK > test_bam_tags_dict_get_value_type_BI OK > test_bam_tags_dict_get_value_type_Bf OK > test_bam_tags_dict_erase_tag OK > test_bam_tags_dict_set_tag_value OK > test_bam_io_sam_read_header OK > test_bam_io_sam_read_alignment OK > test_bam_io_sam_write_header OK > test_bam_io_sam_write_alignment OK > Open failed on file ./core/tests/bam_io/small.bam. (No such file or directory) > lseek returned -1. (Bad file descriptor) > lseek returned -1. (Bad file descriptor) > lseek returned -1. (Bad file descriptor) > seek returned ffffffffffffffff instead of 0 > ./core/tests/bam_io/test_read_bam.h:57 Assertion failed : open(stream, > toCString(bamFilename), "r") should be true but was 0 > > stack trace: > 0 [0x55ac6ee65a55] seqan::ClassTest::fail() + 0x15 > 1 [0x55ac6ee913a3] void SEQAN_TEST_test_bam_io_bam_read_header<true>() > + 0xdd3 > 2 [0x55ac6ee5ac0e] main + 0x80e > 3 [0x7f83d1140d0a] __libc_start_main + 0xea > 4 [0x55ac6ee5b2ba] _start + 0x2a > > test_bam_io_bam_read_header FAILED > Open failed on file ./core/tests/bam_io/small.bam. (No such file or directory) > lseek returned -1. (Bad file descriptor) > lseek returned -1. (Bad file descriptor) > lseek returned -1. (Bad file descriptor) > seek returned ffffffffffffffff instead of 0 > ./core/tests/bam_io/test_read_bam.h:112 Assertion failed : open(stream, > toCString(bamFilename), "r") should be true but was 0 > > stack trace: > 0 [0x55ac6ee65a55] seqan::ClassTest::fail() + 0x15 > 1 [0x55ac6ee9ff4a] void > SEQAN_TEST_test_bam_io_bam_read_alignment<true>() + 0x112a > 2 [0x55ac6ee5ac24] main + 0x824 > 3 [0x7f83d1140d0a] __libc_start_main + 0xea > 4 [0x55ac6ee5b2ba] _start + 0x2a > > test_bam_io_bam_read_alignment FAILED > test_bam_io_bam_write_header OK > test_bam_io_bam_write_alignment OK > ./core/tests/bam_io/test_bam_index.h:52 Assertion failed : read(baiIndex, > toCString(baiFilename)) == 0 was: 1 != 0 > > stack trace: > 0 [0x55ac6ee65a55] seqan::ClassTest::fail() + 0x15 > 1 [0x55ac6ee922d5] void SEQAN_TEST_test_bam_io_bam_index_bai<true>() + > 0xe65 > 2 [0x55ac6ee5ac66] main + 0x866 > 3 [0x7f83d1140d0a] __libc_start_main + 0xea > 4 [0x55ac6ee5b2ba] _start + 0x2a > > test_bam_io_bam_index_bai FAILED > ./core/tests/bam_io/test_bam_stream.h:417 Assertion failed : > isGood(bamStream) should be true but was 0 > > stack trace: > 0 [0x55ac6ee65a55] seqan::ClassTest::fail() + 0x15 > 1 [0x55ac6ee87a66] void > SEQAN_TEST_test_bam_io_bam_stream_sam_file_size<true>() + 0x276 > 2 [0x55ac6ee5ac7c] main + 0x87c > 3 [0x7f83d1140d0a] __libc_start_main + 0xea > 4 [0x55ac6ee5b2ba] _start + 0x2a > > test_bam_io_bam_stream_sam_file_size FAILED > ./core/tests/bam_io/test_bam_stream.h:55 Assertion failed : isGood(bamIO) > should be true but was 0 > > stack trace: > 0 [0x55ac6ee65a55] seqan::ClassTest::fail() + 0x15 > 1 [0x55ac6ee5df43] testBamIOBamStreamReadHeader(char const*) + 0x713 > 2 [0x55ac6ee5ac99] main + 0x899 > 3 [0x7f83d1140d0a] __libc_start_main + 0xea > 4 [0x55ac6ee5b2ba] _start + 0x2a > > test_bam_io_bam_stream_sam_read_header FAILED > ./core/tests/bam_io/test_bam_stream.h:128 Assertion failed : isGood(bamIO) > should be true but was 0 > > stack trace: > 0 [0x55ac6ee65a55] seqan::ClassTest::fail() + 0x15 > 1 [0x55ac6ee630b8] testBamIOBamStreamReadRecords(char const*) + 0x1b88 > 2 [0x55ac6ee5acb6] main + 0x8b6 > 3 [0x7f83d1140d0a] __libc_start_main + 0xea > 4 [0x55ac6ee5b2ba] _start + 0x2a > > test_bam_io_bam_stream_sam_read_records FAILED > ./core/tests/bam_io/test_bam_stream.h:280 Assertion failed : > seqan::_compareTextFiles(toCString(tmpPath), toCString(filePath)) should be > true but was 0 > > stack trace: > 0 [0x55ac6ee65a55] seqan::ClassTest::fail() + 0x15 > 1 [0x55ac6ee60323] testBamIOBamStreamWriteHeader(char const*) + 0xaa3 > 2 [0x55ac6ee5acd3] main + 0x8d3 > 3 [0x7f83d1140d0a] __libc_start_main + 0xea > 4 [0x55ac6ee5b2ba] _start + 0x2a > > test_bam_io_bam_stream_sam_write_header FAILED > ./core/tests/bam_io/test_bam_stream.h:394 Assertion failed : > seqan::_compareTextFiles(toCString(tmpPath), toCString(filePath)) should be > true but was 0 > > stack trace: > 0 [0x55ac6ee65a55] seqan::ClassTest::fail() + 0x15 > 1 [0x55ac6ee5f830] testBamIOBamStreamWriteRecords(char const*) + 0x1470 > 2 [0x55ac6ee5acf0] main + 0x8f0 > 3 [0x7f83d1140d0a] __libc_start_main + 0xea > 4 [0x55ac6ee5b2ba] _start + 0x2a > > test_bam_io_bam_stream_sam_write_records FAILED > ./core/tests/bam_io/test_bam_stream.h:436 Assertion failed : > isGood(bamStream) should be true but was 0 > > stack trace: > 0 [0x55ac6ee65a55] seqan::ClassTest::fail() + 0x15 > 1 [0x55ac6ee87d3b] void > SEQAN_TEST_test_bam_io_bam_stream_bam_file_size<true>() + 0x29b > 2 [0x55ac6ee5ad06] main + 0x906 > 3 [0x7f83d1140d0a] __libc_start_main + 0xea > 4 [0x55ac6ee5b2ba] _start + 0x2a > > test_bam_io_bam_stream_bam_file_size FAILED > ./core/tests/bam_io/test_bam_stream.h:55 Assertion failed : isGood(bamIO) > should be true but was 0 > > stack trace: > 0 [0x55ac6ee65a55] seqan::ClassTest::fail() + 0x15 > 1 [0x55ac6ee5df43] testBamIOBamStreamReadHeader(char const*) + 0x713 > 2 [0x55ac6ee5ad23] main + 0x923 > 3 [0x7f83d1140d0a] __libc_start_main + 0xea > 4 [0x55ac6ee5b2ba] _start + 0x2a > > test_bam_io_bam_stream_bam_read_header FAILED > ./core/tests/bam_io/test_bam_stream.h:128 Assertion failed : isGood(bamIO) > should be true but was 0 > > stack trace: > 0 [0x55ac6ee65a55] seqan::ClassTest::fail() + 0x15 > 1 [0x55ac6ee630b8] testBamIOBamStreamReadRecords(char const*) + 0x1b88 > 2 [0x55ac6ee5ad40] main + 0x940 > 3 [0x7f83d1140d0a] __libc_start_main + 0xea > 4 [0x55ac6ee5b2ba] _start + 0x2a > > test_bam_io_bam_stream_bam_read_records FAILED > ./core/tests/bam_io/test_bam_stream.h:217 Assertion failed : isGood(bamIO) > should be true but was 0 > > stack trace: > 0 [0x55ac6ee65a55] seqan::ClassTest::fail() + 0x15 > 1 [0x55ac6ee88507] void > SEQAN_TEST_test_bam_io_bam_stream_bam_read_ex1<true>() + 0x787 > 2 [0x55ac6ee5ad56] main + 0x956 > 3 [0x7f83d1140d0a] __libc_start_main + 0xea > 4 [0x55ac6ee5b2ba] _start + 0x2a > > test_bam_io_bam_stream_bam_read_ex1 FAILED > ./core/tests/bam_io/test_bam_stream.h:278 Assertion failed : > seqan::_compareBinaryFiles(toCString(tmpPath), toCString(filePath)) should be > true but was 0 > > stack trace: > 0 [0x55ac6ee65a55] seqan::ClassTest::fail() + 0x15 > 1 [0x55ac6ee60178] testBamIOBamStreamWriteHeader(char const*) + 0x8f8 > 2 [0x55ac6ee5ad73] main + 0x973 > 3 [0x7f83d1140d0a] __libc_start_main + 0xea > 4 [0x55ac6ee5b2ba] _start + 0x2a > > test_bam_io_bam_stream_bam_write_header FAILED > ./core/tests/bam_io/test_bam_stream.h:392 Assertion failed : > seqan::_compareBinaryFiles(toCString(tmpPath), toCString(filePath)) should be > true but was 0 > > stack trace: > 0 [0x55ac6ee65a55] seqan::ClassTest::fail() + 0x15 > 1 [0x55ac6ee5f496] testBamIOBamStreamWriteRecords(char const*) + 0x10d6 > 2 [0x55ac6ee5ad90] main + 0x990 > 3 [0x7f83d1140d0a] __libc_start_main + 0xea > 4 [0x55ac6ee5b2ba] _start + 0x2a > > test_bam_io_bam_stream_bam_write_records FAILED > ./core/tests/bam_io/test_bam_stream.h:94 Assertion failed : > isGood(bamStreamIn) should be true but was 0 > > stack trace: > 0 [0x55ac6ee65a55] seqan::ClassTest::fail() + 0x15 > 1 [0x55ac6ee8e687] void > SEQAN_TEST_test_bam_io_bam_stream_issue_489<true>() + 0x5e7 > 2 [0x55ac6ee5ada6] main + 0x9a6 > 3 [0x7f83d1140d0a] __libc_start_main + 0xea > 4 [0x55ac6ee5b2ba] _start + 0x2a > > test_bam_io_bam_stream_issue_489 FAILED > ************************************** > Total Check Points : 0 > Found Check Points : 0 > Lost Check Points : 0 > -------------------------------------- > Total Tests: 101 > Skipped: 0 > Errors: 15 > ************************************** > > Start 50: test_test_basic_fundamental > 47/93 Test #48: test_test_basic_exception > .......................................... Passed 0.01 sec > Start 51: test_test_basic_concept > 48/93 Test #49: test_test_basic_metaprogramming > .................................... Passed 0.01 sec > Start 52: test_test_basic_alphabet > 49/93 Test #45: test_test_align > .................................................... Passed 0.01 sec > Start 53: test_test_basic_aggregate > 50/93 Test #50: test_test_basic_fundamental > ........................................ Passed 0.00 sec > Start 54: test_test_basic_allocator > 51/93 Test #51: test_test_basic_concept > ............................................ Passed 0.00 sec > Start 55: test_test_basic_parallelism > 52/93 Test #52: test_test_basic_alphabet > ........................................... Passed 0.00 sec > Start 56: test_test_basic_math > 53/93 Test #53: test_test_basic_aggregate > .......................................... Passed 0.00 sec > Start 57: test_test_basic_smart_pointer > 54/93 Test #54: test_test_basic_allocator > .......................................... Passed 0.00 sec > Start 58: test_test_basic_container > 55/93 Test #55: test_test_basic_parallelism > ........................................ Passed 0.00 sec > Start 59: test_test_basic_proxy > 56/93 Test #56: test_test_basic_math > ............................................... Passed 0.00 sec > Start 60: test_test_basic_iterator > 57/93 Test #57: test_test_basic_smart_pointer > ...................................... Passed 0.00 sec > Start 61: test_test_consensus > 58/93 Test #58: test_test_basic_container > .......................................... Passed 0.00 sec > Start 62: test_test_file > 59/93 Test #59: test_test_basic_proxy > .............................................. Passed 0.00 sec > Start 63: test_test_find > 60/93 Test #60: test_test_basic_iterator > ........................................... Passed 0.00 sec > Start 64: test_test_gff_io > 61/93 Test #61: test_test_consensus > ................................................***Failed 0.00 sec > TEST SUITE test_consensus > SEQAN_ENABLE_DEBUG == 1 > SEQAN_ENABLE_TESTING == 1 > SEQAN_ENABLE_CHECKPOINTS == 0 > SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" > ./core/tests/consensus/test_consensus_realign.h:54 Assertion failed : > samIn.good() should be true but was 0 > > stack trace: > 0 [0x55d1a7c2e0b5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d1a7c6b206] void > SEQAN_TEST_test_consensus_realign_one_contig_small<true>() + 0x3676 > 2 [0x55d1a7c286c6] main + 0x46 > 3 [0x7f69ff59fd0a] __libc_start_main + 0xea > 4 [0x55d1a7c2884a] _start + 0x2a > > test_consensus_realign_one_contig_small FAILED > ************************************** > Total Check Points : 0 > Found Check Points : 0 > Lost Check Points : 0 > -------------------------------------- > Total Tests: 1 > Skipped: 0 > Errors: 1 > ************************************** > > Start 65: test_test_graph_algorithms > 62/93 Test #62: test_test_file > .....................................................***Failed 0.01 sec > TEST SUITE test_file > SEQAN_ENABLE_DEBUG == 1 > SEQAN_ENABLE_TESTING == 1 > SEQAN_ENABLE_CHECKPOINTS == 0 > SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" > test_file_stream OK > test_file_cstream OK > test_file_raw OK > ./core/tests/file/test_file.h:572 Assertion failed : file_1 should be true > but was 0 > > stack trace: > 0 [0x56399739d5c5] seqan::ClassTest::fail() + 0x15 > 1 [0x56399739bd57] Test_Fasta_Read(char const*) + 0x957 > 2 [0x5639973a74b9] void SEQAN_TEST_test_file_fasta_crlf<true>() + 0x49 > 3 [0x5639973998e6] main + 0x66 > 4 [0x7f177b7cbd0a] __libc_start_main + 0xea > 5 [0x563997399b6a] _start + 0x2a > > test_file_fasta_crlf FAILED > ./core/tests/file/test_file.h:572 Assertion failed : file_1 should be true > but was 0 > > stack trace: > 0 [0x56399739d5c5] seqan::ClassTest::fail() + 0x15 > 1 [0x56399739bd57] Test_Fasta_Read(char const*) + 0x957 > 2 [0x5639973a7519] void SEQAN_TEST_test_file_fasta_lf<true>() + 0x49 > 3 [0x5639973998fc] main + 0x7c > 4 [0x7f177b7cbd0a] __libc_start_main + 0xea > 5 [0x563997399b6a] _start + 0x2a > > test_file_fasta_lf FAILED > ./core/tests/file/test_file.h:572 Assertion failed : file_1 should be true > but was 0 > > stack trace: > 0 [0x56399739d5c5] seqan::ClassTest::fail() + 0x15 > 1 [0x56399739bd57] Test_Fasta_Read(char const*) + 0x957 > 2 [0x5639973a7579] void SEQAN_TEST_test_file_fasta_cr<true>() + 0x49 > 3 [0x563997399912] main + 0x92 > 4 [0x7f177b7cbd0a] __libc_start_main + 0xea > 5 [0x563997399b6a] _start + 0x2a > > test_file_fasta_cr FAILED > test_file_fasta_write OK > ./core/tests/file/test_file.h:728 Assertion failed : file_1 should be true > but was 0 > > stack trace: > 0 [0x56399739d5c5] seqan::ClassTest::fail() + 0x15 > 1 [0x5639973bd8f4] void SEQAN_TEST_test_file_fasta_align<true>() + > 0x3974 > 2 [0x56399739993e] main + 0xbe > 3 [0x7f177b7cbd0a] __libc_start_main + 0xea > 4 [0x563997399b6a] _start + 0x2a > > test_file_fasta_align FAILED > ./core/tests/file/test_file.h:926 Assertion failed : fl should be true but > was 0 > > stack trace: > 0 [0x56399739d5c5] seqan::ClassTest::fail() + 0x15 > 1 [0x5639973a7c79] void SEQAN_TEST_test_file_embl<true>() + 0x6e9 > 2 [0x563997399954] main + 0xd4 > 3 [0x7f177b7cbd0a] __libc_start_main + 0xea > 4 [0x563997399b6a] _start + 0x2a > > test_file_embl FAILED > ./core/tests/file/test_file.h:979 Assertion failed : fl should be true but > was 0 > > stack trace: > 0 [0x56399739d5c5] seqan::ClassTest::fail() + 0x15 > 1 [0x5639973ab06a] void SEQAN_TEST_test_file_genbank<true>() + 0xc7a > 2 [0x56399739996a] main + 0xea > 3 [0x7f177b7cbd0a] __libc_start_main + 0xea > 4 [0x563997399b6a] _start + 0x2a > > test_file_genbank FAILED > ./core/tests/file/test_file.h:1071 Assertion failed : file_fasta should be > true but was 0 > > stack trace: > 0 [0x56399739d5c5] seqan::ClassTest::fail() + 0x15 > 1 [0x5639973a64fe] void SEQAN_TEST_test_file_reader_string<true>() + > 0xf6e > 2 [0x563997399980] main + 0x100 > 3 [0x7f177b7cbd0a] __libc_start_main + 0xea > 4 [0x563997399b6a] _start + 0x2a > > test_file_reader_string FAILED > ./core/tests/file/test_file.h:1260 Assertion failed : file_fasta should be > true but was 0 > > stack trace: > 0 [0x56399739d5c5] seqan::ClassTest::fail() + 0x15 > 1 [0x5639973af15c] void SEQAN_TEST_test_file_reader_string3<true>() + > 0x4ac > 2 [0x563997399996] main + 0x116 > 3 [0x7f177b7cbd0a] __libc_start_main + 0xea > 4 [0x563997399b6a] _start + 0x2a > > test_file_reader_string3 FAILED > ./core/tests/file/test_embl.h:67 Assertion failed : count == 3 was: 0 != 3 > > stack trace: > 0 [0x56399739d5c5] seqan::ClassTest::fail() + 0x15 > 1 [0x5639973afa78] void SEQAN_TEST_test_file_embl_file<true>() + 0x578 > 2 [0x5639973999ac] main + 0x12c > 3 [0x7f177b7cbd0a] __libc_start_main + 0xea > 4 [0x563997399b6a] _start + 0x2a > > test_file_embl_file FAILED > ./core/tests/file/test_embl.h:87 Assertion failed : line == "SCL gene." was: > != SCL gene. > > stack trace: > 0 [0x56399739d5c5] seqan::ClassTest::fail() + 0x15 > 1 [0x5639973a87b6] void SEQAN_TEST_test_file_embl_meta<true>() + 0x666 > 2 [0x5639973999c2] main + 0x142 > 3 [0x7f177b7cbd0a] __libc_start_main + 0xea > 4 [0x563997399b6a] _start + 0x2a > > test_file_embl_meta FAILED > ************************************** > Total Check Points : 0 > Found Check Points : 0 > Lost Check Points : 0 > -------------------------------------- > Total Tests: 14 > Skipped: 0 > Errors: 10 > ************************************** > > Start 66: test_test_graph_align > 63/93 Test #64: test_test_gff_io > ...................................................***Failed 0.01 sec > TEST SUITE test_gff_io > SEQAN_ENABLE_DEBUG == 1 > SEQAN_ENABLE_TESTING == 1 > SEQAN_ENABLE_CHECKPOINTS == 0 > SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" > ./core/tests/gff_io/test_gff_io.h:51 Assertion failed : f.good() should be > true but was 0 > > stack trace: > 0 [0x55c5c42e0f05] seqan::ClassTest::fail() + 0x15 > 1 [0x55c5c42eddd6] void > SEQAN_TEST_test_store_io_read_record_gff<true>() + 0xc56 > 2 [0x55c5c42dc7d4] main + 0x24 > 3 [0x7fba5d639d0a] __libc_start_main + 0xea > 4 [0x55c5c42dca5a] _start + 0x2a > > test_store_io_read_record_gff FAILED > ./core/tests/gff_io/test_gff_io.h:108 Assertion failed : f.good() should be > true but was 0 > > stack trace: > 0 [0x55c5c42e0f05] seqan::ClassTest::fail() + 0x15 > 1 [0x55c5c42ef341] void > SEQAN_TEST_test_store_io_read_record_context_gff<true>() + 0xe81 > 2 [0x55c5c42dc7ea] main + 0x3a > 3 [0x7fba5d639d0a] __libc_start_main + 0xea > 4 [0x55c5c42dca5a] _start + 0x2a > > test_store_io_read_record_context_gff FAILED > test_store_io_read_record_context_empty_trailing_attribute_gff OK > ./core/tests/gff_io/test_gff_io.h:222 Assertion failed : fin.good() should be > true but was 0 > > stack trace: > 0 [0x55c5c42e0f05] seqan::ClassTest::fail() + 0x15 > 1 [0x55c5c42ee42d] void > SEQAN_TEST_test_store_io_write_record_gff<true>() + 0x54d > 2 [0x55c5c42dc816] main + 0x66 > 3 [0x7fba5d639d0a] __libc_start_main + 0xea > 4 [0x55c5c42dca5a] _start + 0x2a > > test_store_io_write_record_gff FAILED > ./core/tests/gff_io/test_gff_io.h:249 Assertion failed : fin.good() should be > true but was 0 > > stack trace: > 0 [0x55c5c42e0f05] seqan::ClassTest::fail() + 0x15 > 1 [0x55c5c42efd26] void > SEQAN_TEST_test_store_io_write_record_context_gff<true>() + 0x8a6 > 2 [0x55c5c42dc82c] main + 0x7c > 3 [0x7fba5d639d0a] __libc_start_main + 0xea > 4 [0x55c5c42dca5a] _start + 0x2a > > test_store_io_write_record_context_gff FAILED > ./core/tests/gff_io/test_gff_io.h:289 Assertion failed : f.good() should be > true but was 0 > > stack trace: > 0 [0x55c5c42e0f05] seqan::ClassTest::fail() + 0x15 > 1 [0x55c5c42f2356] void > SEQAN_TEST_test_store_io_read_record_gtf<true>() + 0xc56 > 2 [0x55c5c42dc842] main + 0x92 > 3 [0x7fba5d639d0a] __libc_start_main + 0xea > 4 [0x55c5c42dca5a] _start + 0x2a > > test_store_io_read_record_gtf FAILED > ./core/tests/gff_io/test_gff_io.h:415 Assertion failed : f.good() should be > true but was 0 > > stack trace: > 0 [0x55c5c42e0f05] seqan::ClassTest::fail() + 0x15 > 1 [0x55c5c42f0c61] void > SEQAN_TEST_test_store_io_read_record_context_gtf<true>() + 0xe81 > 2 [0x55c5c42dc858] main + 0xa8 > 3 [0x7fba5d639d0a] __libc_start_main + 0xea > 4 [0x55c5c42dca5a] _start + 0x2a > > test_store_io_read_record_context_gtf FAILED > ./core/tests/gff_io/test_gff_io.h:348 Assertion failed : f.good() should be > true but was 0 > > stack trace: > 0 [0x55c5c42e0f05] seqan::ClassTest::fail() + 0x15 > 1 [0x55c5c42f35da] void > SEQAN_TEST_test_store_io_read_record_gtf_pseudogenes<true>() + 0x117a > 2 [0x55c5c42dc86e] main + 0xbe > 3 [0x7fba5d639d0a] __libc_start_main + 0xea > 4 [0x55c5c42dca5a] _start + 0x2a > > test_store_io_read_record_gtf_pseudogenes FAILED > ./core/tests/gff_io/test_gff_io.h:479 Assertion failed : fin.good() should be > true but was 0 > > stack trace: > 0 [0x55c5c42e0f05] seqan::ClassTest::fail() + 0x15 > 1 [0x55c5c42f3c7d] void > SEQAN_TEST_test_store_io_write_record_gtf<true>() + 0x54d > 2 [0x55c5c42dc884] main + 0xd4 > 3 [0x7fba5d639d0a] __libc_start_main + 0xea > 4 [0x55c5c42dca5a] _start + 0x2a > > test_store_io_write_record_gtf FAILED > ./core/tests/gff_io/test_gff_io.h:506 Assertion failed : fin.good() should be > true but was 0 > > stack trace: > 0 [0x55c5c42e0f05] seqan::ClassTest::fail() + 0x15 > 1 [0x55c5c42f1646] void > SEQAN_TEST_test_store_io_write_record_context_gtf<true>() + 0x8a6 > 2 [0x55c5c42dc89a] main + 0xea > 3 [0x7fba5d639d0a] __libc_start_main + 0xea > 4 [0x55c5c42dca5a] _start + 0x2a > > test_store_io_write_record_context_gtf FAILED > ./core/tests/gff_io/test_gff_io.h:547 Assertion failed : isGood(gffStream) > should be true but was 0 > > stack trace: > 0 [0x55c5c42e0f05] seqan::ClassTest::fail() + 0x15 > 1 [0x55c5c42f4acd] void > SEQAN_TEST_test_store_io_gff_stream_read_record_gff<true>() + 0xdbd > 2 [0x55c5c42dc8b0] main + 0x100 > 3 [0x7fba5d639d0a] __libc_start_main + 0xea > 4 [0x55c5c42dca5a] _start + 0x2a > > test_store_io_gff_stream_read_record_gff FAILED > ./core/tests/gff_io/test_gff_io.h:602 Assertion failed : isGood(gffStream) > should be true but was 0 > > stack trace: > 0 [0x55c5c42e0f05] seqan::ClassTest::fail() + 0x15 > 1 [0x55c5c42f58b0] void > SEQAN_TEST_test_store_io_gff_stream_read_record_gtf<true>() + 0xd10 > 2 [0x55c5c42dc8c6] main + 0x116 > 3 [0x7fba5d639d0a] __libc_start_main + 0xea > 4 [0x55c5c42dca5a] _start + 0x2a > > test_store_io_gff_stream_read_record_gtf FAILED > ./core/tests/gff_io/test_gff_io.h:655 Assertion failed : isGood(inStream) > should be true but was 0 > > stack trace: > 0 [0x55c5c42e0f05] seqan::ClassTest::fail() + 0x15 > 1 [0x55c5c42f648a] void > SEQAN_TEST_test_store_io_gff_stream_write_record_gff<true>() + 0xb0a > 2 [0x55c5c42dc8dc] main + 0x12c > 3 [0x7fba5d639d0a] __libc_start_main + 0xea > 4 [0x55c5c42dca5a] _start + 0x2a > > test_store_io_gff_stream_write_record_gff FAILED > ./core/tests/gff_io/test_gff_io.h:687 Assertion failed : isGood(inStream) > should be true but was 0 > > stack trace: > 0 [0x55c5c42e0f05] seqan::ClassTest::fail() + 0x15 > 1 [0x55c5c42f700a] void > SEQAN_TEST_test_store_io_gff_stream_write_record_gtf<true>() + 0xb0a > 2 [0x55c5c42dc8f2] main + 0x142 > 3 [0x7fba5d639d0a] __libc_start_main + 0xea > 4 [0x55c5c42dca5a] _start + 0x2a > > test_store_io_gff_stream_write_record_gtf FAILED > ************************************** > Total Check Points : 0 > Found Check Points : 0 > Lost Check Points : 0 > -------------------------------------- > Total Tests: 14 > Skipped: 0 > Errors: 13 > ************************************** > > Start 67: test_test_graph_msa > 64/93 Test #65: test_test_graph_algorithms > ......................................... Passed 0.01 sec > Start 68: test_test_graph_types > 65/93 Test #66: test_test_graph_align > .............................................. Passed 0.00 sec > Start 69: test_test_index_creation > 66/93 Test #68: test_test_graph_types > .............................................. Passed 0.00 sec > Start 70: test_test_index_crosscompare_char > 67/93 Test #70: test_test_index_crosscompare_char > .................................. Passed 0.05 sec > Start 71: test_test_index_crosscompare_char_dfi > 68/93 Test #71: test_test_index_crosscompare_char_dfi > .............................. Passed 0.01 sec > Start 72: test_test_index_crosscompare_dna > 69/93 Test #72: test_test_index_crosscompare_dna > ................................... Passed 0.00 sec > Start 73: test_test_index_crosscompare_dna_dfi > 70/93 Test #73: test_test_index_crosscompare_dna_dfi > ............................... Passed 0.00 sec > Start 74: test_test_index_qgram > 71/93 Test #74: test_test_index_qgram > .............................................. Passed 0.00 sec > Start 75: test_test_index_sa_bwtwalk > 72/93 Test #75: test_test_index_sa_bwtwalk > .........................................***Failed 0.00 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" > ./core/include/seqan/file/file_format_raw.h:93 Assertion failed : > _streamEOF(file) should be false but was 1 > > stack trace: > 0 [0x563926d6e585] seqan::ClassTest::fail() + 0x15 > 1 [0x563926d7e619] void seqan::SEQAN_TEST_testBWTWalk<true>() + 0x3779 > 2 [0x563926d6c726] main + 0x46 > 3 [0x7f51b3812d0a] __libc_start_main + 0xea > 4 [0x563926d6c82a] _start + 0x2a > > testBWTWalk FAILED > ************************************** > Total Check Points : 0 > Found Check Points : 0 > Lost Check Points : 0 > -------------------------------------- > Total Tests: 1 > Skipped: 0 > Errors: 1 > ************************************** > > Start 76: test_test_index_shapes > 73/93 Test #76: test_test_index_shapes > ............................................. Passed 0.00 sec > Start 77: test_test_index_drawing > 74/93 Test #77: test_test_index_drawing > ............................................ Passed 0.00 sec > Start 78: test_test_index_repeats > 75/93 Test #78: test_test_index_repeats > ............................................ Passed 0.09 sec > Start 79: test_test_map > 76/93 Test #67: test_test_graph_msa > ................................................ Passed 0.20 sec > Start 80: test_test_misc > 77/93 Test #80: test_test_misc > ..................................................... Passed 0.00 sec > Start 81: test_test_misc_cmdparser > 78/93 Test #81: test_test_misc_cmdparser > ........................................... Passed 0.00 sec > Start 82: test_test_modifier > 79/93 Test #82: test_test_modifier > ................................................. Passed 0.00 sec > Start 83: test_test_parallel > 80/93 Test #63: test_test_find > ..................................................... Passed 0.33 sec > Start 84: test_test_pipe > 81/93 Test #79: test_test_map > ...................................................... Passed 0.49 sec > Start 85: test_test_random > 82/93 Test #85: test_test_random > ................................................... Passed 0.04 sec > Start 86: test_test_score > 83/93 Test #86: test_test_score > ....................................................***Failed 0.02 sec > TEST SUITE test_score > SEQAN_ENABLE_DEBUG == 1 > SEQAN_ENABLE_TESTING == 1 > SEQAN_ENABLE_CHECKPOINTS == 0 > SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" > test_score_gap_open OK > test_score_simple OK > test_score_edit OK > ./core/tests/score/test_score.cpp:63 Assertion failed : score(mat1, a, b) == > score(mat2, a, b) was: 4 != 0 (a = A, b = A) > > stack trace: > 0 [0x557172d92595] seqan::ClassTest::fail() + 0x15 > 1 [0x557172d94ccf] > /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/bin/test_score(+0xaccf) > 2 [0x557172d9ba2e] void SEQAN_TEST_test_score_matrix<true>() + 0x7fe > 3 [0x557172d8f726] main + 0x66 > 4 [0x7f4dfc2fad0a] __libc_start_main + 0xea > 5 [0x557172d8f8aa] _start + 0x2a > > test_score_matrix FAILED > ./core/tests/score/test_score.cpp:63 Assertion failed : score(mat1, a, b) == > score(mat2, a, b) was: 4 != 0 (a = A, b = A) > > stack trace: > 0 [0x557172d92595] seqan::ClassTest::fail() + 0x15 > 1 [0x557172d94ccf] > /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/bin/test_score(+0xaccf) > 2 [0x557172d9d5a7] void SEQAN_TEST_test_score_matrix_file<true>() + > 0x2f7 > 3 [0x557172d8f73c] main + 0x7c > 4 [0x7f4dfc2fad0a] __libc_start_main + 0xea > 5 [0x557172d8f8aa] _start + 0x2a > > test_score_matrix_file FAILED > test_score_matrix_sprintf_value OK > ./core/tests/score/test_score.cpp:63 Assertion failed : score(mat1, a, b) == > score(mat2, a, b) was: 0 != 4 (a = A, b = A) > > stack trace: > 0 [0x557172d92595] seqan::ClassTest::fail() + 0x15 > 1 [0x557172d9cfd2] void SEQAN_TEST_test_score_matrix_data<true>() + > 0x1122 > 2 [0x557172d8f768] main + 0xa8 > 3 [0x7f4dfc2fad0a] __libc_start_main + 0xea > 4 [0x557172d8f8aa] _start + 0x2a > > test_score_matrix_data FAILED > test_score_sequence_entry_for_score OK > ************************************** > Total Check Points : 0 > Found Check Points : 0 > Lost Check Points : 0 > -------------------------------------- > Total Tests: 8 > Skipped: 0 > Errors: 3 > ************************************** > > Start 87: test_test_seeds > 84/93 Test #87: test_test_seeds > .................................................... Passed 0.09 sec > Start 88: test_test_seq_io > 85/93 Test #88: test_test_seq_io > ...................................................***Failed 0.04 sec > TEST SUITE test_seq_io > SEQAN_ENABLE_DEBUG == 1 > SEQAN_ENABLE_TESTING == 1 > SEQAN_ENABLE_CHECKPOINTS == 0 > SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" > ./core/tests/seq_io/test_sequence_stream.h:56 Assertion failed : > seqan::readFasta(seq, toCString(filePath)) == 0 was: 1 != 0 > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffb3da7] void SEQAN_TEST_test_seq_io_read_fasta<true>() + > 0x167 > 2 [0x55d98ff6957e] main + 0x2e > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_read_fasta FAILED > ./core/tests/seq_io/test_sequence_stream.h:74 Assertion failed : > isGood(seqIO) should be true but was 0 > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffb3f25] void > SEQAN_TEST_test_seq_io_sequence_stream_recognize_file_type_text_fasta<true>() > + 0x135 > 2 [0x55d98ff69594] main + 0x44 > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_sequence_stream_recognize_file_type_text_fasta FAILED > ./core/tests/seq_io/test_sequence_stream.h:90 Assertion failed : > isGood(seqIO) should be true but was 0 > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffb4095] void > SEQAN_TEST_test_seq_io_sequence_stream_recognize_file_type_gz_fasta<true>() + > 0x135 > 2 [0x55d98ff695aa] main + 0x5a > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_sequence_stream_recognize_file_type_gz_fasta FAILED > test_seq_io_sequence_stream_recognize_file_type_bz2_fasta OK > ./core/tests/seq_io/test_sequence_stream.h:127 Assertion failed : > isGood(seqIO) should be true but was 0 > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffb4205] void > SEQAN_TEST_test_seq_io_sequence_stream_recognize_file_format_text_fasta<true>() > + 0x135 > 2 [0x55d98ff695d1] main + 0x81 > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_sequence_stream_recognize_file_format_text_fasta FAILED > ./core/tests/seq_io/test_sequence_stream.h:142 Assertion failed : > isGood(seqIO) should be true but was 0 > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffb4375] void > SEQAN_TEST_test_seq_io_sequence_stream_recognize_file_format_text_fastq<true>() > + 0x135 > 2 [0x55d98ff695e7] main + 0x97 > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_sequence_stream_recognize_file_format_text_fastq FAILED > ./core/tests/seq_io/test_sequence_stream.h:164 Assertion failed : 0 == > readRecord(id, seq, seqIO) was: 0 != 1 > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffb474d] void > SEQAN_TEST_test_seq_io_sequence_stream_read_record_text_fasta<true>() + 0x39d > 2 [0x55d98ff695fd] main + 0xad > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_sequence_stream_read_record_text_fasta FAILED > ./core/tests/seq_io/test_sequence_stream.h:193 Assertion failed : 0 == > readBatch(ids, seqs, seqIO, 2) was: 0 != 1 > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffb4cc6] void > SEQAN_TEST_test_seq_io_sequence_stream_read_batch_text_fasta<true>() + 0x4f6 > 2 [0x55d98ff69613] main + 0xc3 > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_sequence_stream_read_batch_text_fasta FAILED > ./core/tests/seq_io/test_sequence_stream.h:222 Assertion failed : 0 == > readAll(ids, seqs, seqIO) was: 0 != 1 > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffb5e5e] void > SEQAN_TEST_test_seq_io_sequence_stream_read_all_text_fasta<true>() + 0x110e > 2 [0x55d98ff69629] main + 0xd9 > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_sequence_stream_read_all_text_fasta FAILED > ./core/tests/seq_io/test_sequence_stream.h:265 Assertion failed : > seqan::_compareTextFiles(toCString(pathToExpected), toCString(filePath)) > should be true but was 0 (Output should match example.) > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffb928f] void > SEQAN_TEST_test_seq_io_sequence_stream_write_record_text_fasta<true>() + 0x2ef > 2 [0x55d98ff6963f] main + 0xef > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_sequence_stream_write_record_text_fasta FAILED > ./core/tests/seq_io/test_sequence_stream.h:294 Assertion failed : > seqan::_compareTextFiles(toCString(pathToExpected), toCString(filePath)) > should be true but was 0 (Output should match example.) > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffb95df] void > SEQAN_TEST_test_seq_io_sequence_stream_write_all_text_fasta<true>() + 0x2ef > 2 [0x55d98ff69655] main + 0x105 > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_sequence_stream_write_all_text_fasta FAILED > ./core/tests/seq_io/test_sequence_stream.h:323 Assertion failed : > seqan::_compareTextFiles(toCString(pathToExpected), toCString(filePath)) > should be true but was 0 (Output should match example.) > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffb992f] void > SEQAN_TEST_test_seq_io_sequence_stream_write_record_text_fastq_no_qual<true>() > + 0x2ef > 2 [0x55d98ff6966b] main + 0x11b > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_sequence_stream_write_record_text_fastq_no_qual FAILED > ./core/tests/seq_io/test_sequence_stream.h:356 Assertion failed : > seqan::_compareTextFiles(toCString(pathToExpected), toCString(filePath)) > should be true but was 0 (Output should match example.) > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffba6de] void > SEQAN_TEST_test_seq_io_sequence_stream_write_record_text_fastq_with_qual<true>() > + 0x6be > 2 [0x55d98ff69681] main + 0x131 > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_sequence_stream_write_record_text_fastq_with_qual FAILED > ./core/tests/seq_io/test_sequence_stream.h:385 Assertion failed : > seqan::_compareTextFiles(toCString(pathToExpected), toCString(filePath)) > should be true but was 0 (Output should match example.) > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffb9c7f] void > SEQAN_TEST_test_seq_io_sequence_stream_write_all_text_fastq_no_qual<true>() + > 0x2ef > 2 [0x55d98ff69697] main + 0x147 > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_sequence_stream_write_all_text_fastq_no_qual FAILED > ./core/tests/seq_io/test_sequence_stream.h:418 Assertion failed : > seqan::_compareTextFiles(toCString(pathToExpected), toCString(filePath)) > should be true but was 0 (Output should match example.) > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffbae1e] void > SEQAN_TEST_test_seq_io_sequence_stream_write_all_text_fastq_with_qual<true>() > + 0x6be > 2 [0x55d98ff696ad] main + 0x15d > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_sequence_stream_write_all_text_fastq_with_qual FAILED > test_seq_io_genomic_region_default_constructed OK > test_seq_io_genomic_region_from_string OK > test_seq_io_genomic_region_clear OK > test_seq_io_genomic_region_parse_chrom OK > test_seq_io_genomic_region_parse_chrom_begin OK > test_seq_io_genomic_region_parse_chrom_begin_end OK > Open failed on file ./core/tests/seq_io/adeno_genome.fa: "No such file or > directory" > ./core/tests/seq_io/test_fai_index.h:46 Assertion failed : build(faiIndex, > toCString(filePath)) == 0 was: 1 != 0 > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffb65d5] void > SEQAN_TEST_test_seq_io_genomic_fai_index_build<true>() + 0x4d5 > 2 [0x55d98ff69747] main + 0x1f7 > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_genomic_fai_index_build FAILED > Open failed on file ./core/tests/seq_io/adeno_genome.fa: "No such file or > directory" > ./core/tests/seq_io/test_fai_index.h:61 Assertion failed : build(faiIndex, > toCString(filePath)) == 0 was: 1 != 0 > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffb68b2] void > SEQAN_TEST_test_seq_io_genomic_fai_index_write<true>() + 0x262 > 2 [0x55d98ff6975d] main + 0x20d > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_genomic_fai_index_write FAILED > Open failed on file ./core/tests/seq_io/adeno_genome.fa: "No such file or > directory" > ./core/tests/seq_io/test_fai_index.h:78 Assertion failed : read(faiIndex, > toCString(filePath)) == 0 was: 1 != 0 > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffb6dcb] void > SEQAN_TEST_test_seq_io_genomic_fai_index_read<true>() + 0x4ab > 2 [0x55d98ff69773] main + 0x223 > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_genomic_fai_index_read FAILED > Open failed on file ./core/tests/seq_io/adeno_genome.fa: "No such file or > directory" > ./core/tests/seq_io/test_fai_index.h:93 Assertion failed : read(faiIndex, > toCString(filePath)) == 0 was: 1 != 0 > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffb70ee] void > SEQAN_TEST_test_seq_io_genomic_fai_index_read_sequence<true>() + 0x2ae > 2 [0x55d98ff69789] main + 0x239 > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_genomic_fai_index_read_sequence FAILED > Open failed on file ./core/tests/seq_io/adeno_genome.fa: "No such file or > directory" > ./core/tests/seq_io/test_fai_index.h:109 Assertion failed : read(faiIndex, > toCString(filePath)) == 0 was: 1 != 0 > > stack trace: > 0 [0x55d98ff75aa5] seqan::ClassTest::fail() + 0x15 > 1 [0x55d98ffb77ba] void > SEQAN_TEST_test_seq_io_genomic_fai_index_read_region<true>() + 0x67a > 2 [0x55d98ff6979f] main + 0x24f > 3 [0x7ff5c7f69d0a] __libc_start_main + 0xea > 4 [0x55d98ff6a20a] _start + 0x2a > > test_seq_io_genomic_fai_index_read_region FAILED > test_stream_record_reader_fasta_single_fstream OK > test_stream_record_reader_fasta_double_fstream OK > test_stream_record_reader_fasta_batch_single_fstream OK > test_stream_record_reader_fasta_batch_double_fstream OK > test_stream_record_reader_fasta_single_mmap OK > test_stream_record_reader_fasta_double_mmap OK > test_stream_record_reader_fasta_batch_single_mmap OK > test_stream_record_reader_fasta_batch_single_concat_mmap OK > test_stream_record_reader_fasta_batch_double_mmap OK > test_stream_record_reader_fasta_batch_double_concat_mmap OK > test_stream_record_reader_fastq_single_fstream OK > test_stream_record_reader_fastq_double_fstream OK > test_stream_record_reader_fastq_batch_single_fstream OK > test_stream_record_reader_fastq_batch_double_fstream OK > test_stream_record_reader_fastq_single_mmap OK > test_stream_record_reader_fastq_double_mmap OK > test_stream_record_reader_fastq_batch_single_mmap OK > test_stream_record_reader_fastq_batch_single_concat_mmap OK > test_stream_record_reader_fastq_batch_double_mmap OK > test_stream_record_reader_fastq_batch_double_concat_mmap OK > test_stream_record_reader_fastq_check_stream_format OK > test_stream_read_embl_single_char_array_stream OK > test_stream_read_embl_record_char_array_stream OK > test_stream_read_embl_batch_char_array_stream OK > test_stream_read_embl_single_mmap OK > test_stream_read_embl_single_batch_mmap OK > test_stream_read_embl_single_batch_concat_mmap OK > test_stream_read_genbank_single_char_array_stream OK > test_stream_read_genbank_record_char_array_stream OK > test_stream_read_genbank_batch_char_array_stream OK > test_stream_read_genbank_single_mmap OK > test_stream_read_genbank_single_batch_mmap OK > test_stream_read_genbank_single_batch_concat_mmap OK > test_stream_guess_stream_format_auto_fasta OK > test_stream_guess_stream_format_auto_fastq OK > test_stream_guess_stream_format_auto_bogus OK > test_stream_read_record_auto_format_quals_fasta OK > test_stream_read_record_auto_format_quals_fastq OK > test_stream_read_record_auto_format_no_quals_fasta OK > test_stream_read_record_auto_format_no_quals_fastq OK > test_stream_read_auto_format_quals_fasta OK > test_stream_read_auto_format_quals_fastq OK > test_stream_read_auto_format_no_quals_fasta OK > test_stream_read_auto_format_no_quals_fastq OK > test_stream_record_reader_fasta_protein_single_fstream OK > test_stream_record_reader_fasta_annotated_protein_single_fstream OK > test_stream_write_record_fasta_default OK > test_stream_write_record_fasta_no_empty_lines OK > test_stream_write_record_fasta_nolinebreaks OK > test_stream_write_record_fastq_default_separate_qual OK > test_stream_write_record_fastq_default_qual_in_seq OK > test_stream_write_record_fastq_linebreaks_qualmeta OK > test_stream_write2_fasta_default OK > test_stream_write2_fastq_default_separate_qual OK > test_stream_write2_fastq_default_qual_in_seq OK > ************************************** > Total Check Points : 0 > Found Check Points : 0 > Lost Check Points : 0 > -------------------------------------- > Total Tests: 81 > Skipped: 0 > Errors: 19 > ************************************** > > Start 89: test_test_sequence > 86/93 Test #89: test_test_sequence > ................................................. Passed 0.05 sec > Start 90: test_test_sequence_journaled > 87/93 Test #83: test_test_parallel > ................................................. Passed 0.75 sec > Start 91: test_test_store > 88/93 Test #90: test_test_sequence_journaled > ....................................... Passed 0.05 sec > Start 92: test_test_stream > 89/93 Test #91: test_test_store > ....................................................***Failed 0.01 sec > TEST SUITE test_store > SEQAN_ENABLE_DEBUG == 1 > SEQAN_ENABLE_TESTING == 1 > SEQAN_ENABLE_CHECKPOINTS == 0 > SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" > ./core/tests/store/test_store_io.h:52 Assertion failed : f.good() should be > true but was 0 > > stack trace: > 0 [0x557631f9fd45] seqan::ClassTest::fail() + 0x15 > 1 [0x557631fd0888] void > SEQAN_TEST_test_store_io_read_ucsc_known_genes<true>() + 0x19d8 > 2 [0x557631f8ee54] main + 0x24 > 3 [0x7fb15f69cd0a] __libc_start_main + 0xea > 4 [0x557631f8f14a] _start + 0x2a > > test_store_io_read_ucsc_known_genes FAILED > ./core/tests/store/test_store_io.h:175 Assertion failed : fin.good() should > be true but was 0 > > stack trace: > 0 [0x557631f9fd45] seqan::ClassTest::fail() + 0x15 > 1 [0x557631fd1861] void > SEQAN_TEST_test_store_io_write_ucsc_known_genes<true>() + 0xe21 > 2 [0x557631f8ee6a] main + 0x3a > 3 [0x7fb15f69cd0a] __libc_start_main + 0xea > 4 [0x557631f8f14a] _start + 0x2a > > test_store_io_write_ucsc_known_genes FAILED > ./core/tests/store/test_store_io.h:198 Assertion failed : f.good() should be > true but was 0 > > stack trace: > 0 [0x557631f9fd45] seqan::ClassTest::fail() + 0x15 > 1 [0x557631fd21d0] void SEQAN_TEST_test_store_io_read_gff<true>() + > 0x8d0 > 2 [0x557631f8ee80] main + 0x50 > 3 [0x7fb15f69cd0a] __libc_start_main + 0xea > 4 [0x557631f8f14a] _start + 0x2a > > test_store_io_read_gff FAILED > ./core/tests/store/test_store_io.h:248 Assertion failed : fin.good() should > be true but was 0 > > stack trace: > 0 [0x557631f9fd45] seqan::ClassTest::fail() + 0x15 > 1 [0x557631fd32a9] void SEQAN_TEST_test_store_io_write_gff<true>() + > 0x1029 > 2 [0x557631f8ee96] main + 0x66 > 3 [0x7fb15f69cd0a] __libc_start_main + 0xea > 4 [0x557631f8f14a] _start + 0x2a > > test_store_io_write_gff FAILED > ./core/tests/store/test_store_io.h:272 Assertion failed : f.good() should be > true but was 0 > > stack trace: > 0 [0x557631f9fd45] seqan::ClassTest::fail() + 0x15 > 1 [0x557631fd4cf8] void SEQAN_TEST_test_store_io_read_gtf<true>() + > 0x1988 > 2 [0x557631f8eeac] main + 0x7c > 3 [0x7fb15f69cd0a] __libc_start_main + 0xea > 4 [0x557631f8f14a] _start + 0x2a > > test_store_io_read_gtf FAILED > ./core/tests/store/test_store_io.h:394 Assertion failed : fin.good() should > be true but was 0 > > stack trace: > 0 [0x557631f9fd45] seqan::ClassTest::fail() + 0x15 > 1 [0x557631fd63e0] void SEQAN_TEST_test_store_io_write_gtf<true>() + > 0x1530 > 2 [0x557631f8eec2] main + 0x92 > 3 [0x7fb15f69cd0a] __libc_start_main + 0xea > 4 [0x557631f8f14a] _start + 0x2a > > test_store_io_write_gtf FAILED > ./core/tests/store/test_store_io.h:544 Assertion failed : fAmosIn.good() > should be true but was 0 > > stack trace: > 0 [0x557631f9fd45] seqan::ClassTest::fail() + 0x15 > 1 [0x557631fd990a] void SEQAN_TEST_test_store_io_read_amos<true>() + > 0x310a > 2 [0x557631f8eed8] main + 0xa8 > 3 [0x7fb15f69cd0a] __libc_start_main + 0xea > 4 [0x557631f8f14a] _start + 0x2a > > test_store_io_read_amos FAILED > ./core/tests/store/test_store_io.h:587 Assertion failed : fFastaIn.good() > should be true but was 0 > > stack trace: > 0 [0x557631f9fd45] seqan::ClassTest::fail() + 0x15 > 1 [0x557631fe2571] void SEQAN_TEST_test_store_io_write_amos<true>() + > 0x1c91 > 2 [0x557631f8eeee] main + 0xbe > 3 [0x7fb15f69cd0a] __libc_start_main + 0xea > 4 [0x557631f8f14a] _start + 0x2a > > test_store_io_write_amos FAILED > Open failed on file ./core/tests/store/ex1.fa: "No such file or directory" > ./core/tests/store/test_store_io.h:430 Assertion failed : f.good() should be > true but was 0 > > stack trace: > 0 [0x557631f9fd45] seqan::ClassTest::fail() + 0x15 > 1 [0x557631fe07f9] void SEQAN_TEST_test_store_io_sam<true>() + 0xee9 > 2 [0x557631f8ef04] main + 0xd4 > 3 [0x7fb15f69cd0a] __libc_start_main + 0xea > 4 [0x557631f8f14a] _start + 0x2a > > test_store_io_sam FAILED > Open failed on file ./core/tests/store/ex1.fa: "No such file or directory" > Open failed on file ./core/tests/store/ex1.bam. (No such file or directory) > lseek returned -1. (Bad file descriptor) > lseek returned -1. (Bad file descriptor) > lseek returned -1. (Bad file descriptor) > seek returned ffffffffffffffff instead of 0 > ./core/tests/store/test_store_io.h:488 Assertion failed : open(stream, > toCString(bamFileName), "r") should be true but was 0 > > stack trace: > 0 [0x557631f9fd45] seqan::ClassTest::fail() + 0x15 > 1 [0x557631fdf7d9] void SEQAN_TEST_test_store_io_read_bam<true>() + > 0xf89 > 2 [0x557631f8ef1a] main + 0xea > 3 [0x7fb15f69cd0a] __libc_start_main + 0xea > 4 [0x557631f8f14a] _start + 0x2a > > test_store_io_read_bam FAILED > ************************************** > Total Check Points : 0 > Found Check Points : 0 > Lost Check Points : 0 > -------------------------------------- > Total Tests: 10 > Skipped: 0 > Errors: 10 > ************************************** > > Start 93: test_test_find_swift > 90/93 Test #93: test_test_find_swift > ............................................... Passed 0.01 sec > 91/93 Test #84: test_test_pipe > ..................................................... Passed 0.70 sec > 92/93 Test #92: test_test_stream > ...................................................***Exception: SegFault > 3.60 sec > TEST SUITE test_stream > SEQAN_ENABLE_DEBUG == 1 > SEQAN_ENABLE_TESTING == 1 > SEQAN_ENABLE_CHECKPOINTS == 0 > SEQAN_CXX_FLAGS == "SEQAN_CXX_FLAGS_NOT_SET" > test_stream_char_array_metafunctions OK > test_stream_char_array_read_simple_usage OK > test_stream_char_array_read_complex_usage OK > test_stream_char_array_write_simple_usage OK > test_stream_char_array_write_complex_usage OK > test_stream_char_array_eof OK > test_stream_char_array_peek OK > test_stream_char_array_read_char OK > test_stream_char_array_read_block OK > test_stream_char_array_write_block OK > test_stream_char_array_streamPut OK > test_stream_char_array_write_char OK > test_stream_char_array_flush OK > test_stream_char_array_seek OK > test_stream_char_array_tell OK > test_stream_file_stream_metafunctions_file OK > test_stream_file_stream_metafunctions_mmap OK > test_stream_file_stream_read_simple_usage_file OK > test_stream_file_stream_read_simple_usage_mmap OK > test_stream_file_stream_read_complex_usage_file OK > test_stream_file_stream_read_complex_usage_mmap OK > test_stream_file_stream_write_simple_usage_file OK > test_stream_file_stream_write_simple_usage_mmap OK > test_stream_file_stream_write_complex_usage_file OK > test_stream_file_stream_write_complex_usage_mmap OK > test_stream_file_stream_eof_file OK > test_stream_file_stream_eof_mmap OK > test_stream_file_stream_peek_file OK > test_stream_file_stream_peek_mmap OK > test_stream_file_stream_read_char_file OK > test_stream_file_stream_read_char_mmap OK > test_stream_file_stream_read_block_file OK > test_stream_file_stream_read_block_mmap OK > test_stream_file_stream_write_block_file OK > test_stream_file_stream_write_block_mmap OK > test_stream_file_stream_streamPut_file OK > test_stream_file_stream_streamPut_mmap OK > test_stream_file_stream_write_char_file OK > test_stream_file_stream_write_char_mmap OK > test_stream_file_stream_flush_file OK > test_stream_file_stream_flush_mmap OK > test_stream_file_stream_seek_file OK > test_stream_file_stream_seek_mmap OK > test_stream_file_stream_tell_file OK > test_stream_file_stream_tell_mmap OK > test_stream_file_stream_read_large_file OK > test_stream_file_stream_read_large_mmap OK > test_stream_file_stream_write_large_file OK > test_stream_file_stream_write_large_mmap OK > test_stream_file_stream_seek_large_file OK > test_stream_file_stream_seek_large_mmap OK > test_stream_gz_file_metafunctions OK > test_stream_gz_file_read_simple_usage OK > test_stream_gz_file_read_complex_usage OK > test_stream_gz_file_write_simple_usage OK > test_stream_gz_file_write_complex_usage OK > test_stream_gz_file_eof OK > test_stream_gz_file_peek OK > test_stream_gz_file_read_char OK > test_stream_gz_file_read_block OK > test_stream_gz_file_write_block OK > test_stream_gz_file_streamPut OK > test_stream_gz_file_write_char OK > test_stream_gz_file_flush OK > test_stream_gz_file_seek OK > test_stream_gz_file_tell OK > test_stream_bgzf_metafunctions OK > test_stream_bgzf_read_simple_usage OK > test_stream_bgzf_read_complex_usage OK > test_stream_bgzf_write_simple_usage OK > test_stream_bgzf_write_complex_usage OK > test_stream_bgzf_eof OK > test_stream_bgzf_peek OK > test_stream_bgzf_read_char OK > test_stream_bgzf_read_block OK > test_stream_bgzf_write_block OK > test_stream_bgzf_streamPut OK > test_stream_bgzf_write_char OK > test_stream_bgzf_flush OK > test_stream_bgzf_seek OK > test_stream_bgzf_tell OK > > > stack trace: > 0 [0x55f53a4309e4] > /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/bin/test_stream(+0x179e4) > 1 [0x7faaf8a06d60] /lib/x86_64-linux-gnu/libc.so.6(+0x3bd60) > 2 [0x7faaf8a47750] _IO_feof + 0 > 3 [0x55f53a44df9a] void > SEQAN_TEST_test_stream_bgzf_write_large_and_compare_with_file<true>() + 0x26a > 4 [0x55f53a42ea82] main + 0xa52 > 5 [0x7faaf89f1d0a] __libc_start_main + 0xea > 6 [0x55f53a42feca] _start + 0x2a > > > 93/93 Test #69: test_test_index_creation > ........................................... Passed 7.22 sec > > 86% tests passed, 13 tests failed out of 93 > > Total Test time (real) = 7.78 sec > > The following tests FAILED: > 7 - test_demo_bam_io_bam_stream (Failed) > 41 - test_demo_seq_io_fai_index_example (Failed) > 42 - test_demo_seq_io_sequence_stream_read (Failed) > 46 - test_test_arg_parse (Failed) > 47 - test_test_bam_io (Failed) > 61 - test_test_consensus (Failed) > 62 - test_test_file (Failed) > 64 - test_test_gff_io (Failed) > 75 - test_test_index_sa_bwtwalk (Failed) > 86 - test_test_score (Failed) > 88 - test_test_seq_io (Failed) > 91 - test_test_store (Failed) > 92 - test_test_stream (SEGFAULT) > Errors while running CTest > make[2]: *** [Makefile:106: 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/2021/01/20/seqan_1.4.2+dfsg-4_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.