Source: htslib, python-pysam Control: found -1 htslib/1.9-10 Control: found -1 python-pysam/0.15.1+ds-1 X-Debbugs-CC: debian...@lists.debian.org User: debian...@lists.debian.org Usertags: breaks needs-update
Dear maintainers, With a recent upload of htslib the autopkgtest of python-pysam fails in testing when that autopkgtest is run with the binary packages of htslib from unstable. It passes when run with only packages from testing. In tabular form: pass fail htslib from testing 1.9-10 python-pysam from testing 0.15.1+ds-1 all others from testing from testing I copied some of the output at the bottom of this report. Currently this regression is blocking the migration of htslib to testing [1]. Due to the nature of this issue, I filed this bug report against both packages. Can you please investigate the situation and reassign the bug to the right package? If needed, please change the bug's severity. More information about this bug and the reason for filing it can be found on https://wiki.debian.org/ContinuousIntegration/RegressionEmailInformation Paul [1] https://qa.debian.org/excuses.php?package=htslib https://ci.debian.net/data/autopkgtest/testing/amd64/p/python-pysam/1739216/log.gz =================================== FAILURES =================================== _____________ TestIndexing.test_indexing_to_custom_location_works ______________ self = <tabix_test.TestIndexing testMethod=test_indexing_to_custom_location_works> def test_indexing_to_custom_location_works(self): '''test indexing a file with a non-default location.''' index_path = get_temp_filename(suffix='custom.tbi') pysam.tabix_index(self.tmpfilename, preset="gff", index=index_path, force=True) > self.assertTrue(checkBinaryEqual(index_path, self.filename_idx)) E AssertionError: False is not true tests/tabix_test.py:89: AssertionError ____________ TestIndexing.test_indexing_with_explict_columns_works _____________ self = <tabix_test.TestIndexing testMethod=test_indexing_with_explict_columns_works> def test_indexing_with_explict_columns_works(self): '''test indexing via preset.''' pysam.tabix_index(self.tmpfilename, seq_col=0, start_col=3, end_col=4, line_skip=0, zerobased=False) self.assertTrue(checkBinaryEqual( > self.tmpfilename + ".tbi", self.filename_idx)) E AssertionError: False is not true tests/tabix_test.py:102: AssertionError _________________ TestIndexing.test_indexing_with_preset_works _________________ self = <tabix_test.TestIndexing testMethod=test_indexing_with_preset_works> def test_indexing_with_preset_works(self): '''test indexing via preset.''' pysam.tabix_index(self.tmpfilename, preset="gff") self.assertTrue(checkBinaryEqual( > self.tmpfilename + ".tbi", self.filename_idx)) E AssertionError: False is not true tests/tabix_test.py:81: AssertionError
signature.asc
Description: OpenPGP digital signature