Source: libchemistry-opensmiles-perl, smiles-scripts Control: found -1 libchemistry-opensmiles-perl/0.8.4-1 Control: found -1 smiles-scripts/0.2.0+dfsg1-1 Severity: serious Tags: sid bookworm User: debian...@lists.debian.org Usertags: breaks needs-update
Dear maintainer(s),With a recent upload of libchemistry-opensmiles-perl the autopkgtest of smiles-scripts fails in testing when that autopkgtest is run with the binary packages of libchemistry-opensmiles-perl from unstable. It passes when run with only packages from testing. In tabular form:
pass fail
libchemistry-opensmiles-perl from testing 0.8.4-1
smiles-scripts from testing 0.2.0+dfsg1-1
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
libchemistry-opensmiles-perl 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?
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=libchemistry-opensmiles-perl https://ci.debian.net/data/autopkgtest/testing/amd64/s/smiles-scripts/29465786/log.gz find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory make: svnversion: No such file or directory find: ‘src/net’: No such file or directory find: ‘src/net’: No such file or directory find: ‘src/net’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory mkjavadepend src classes > .depend find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory make: svnversion: No such file or directory find: ‘src/net’: No such file or directory find: ‘src/net’: No such file or directory find: ‘src/net’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory find: ‘externals’: No such file or directory tests/cases/cdkcif2smiles_001.opt: OK tests/cases/cdkcif2xyz_001.opt: OK tests/cases/cdkdepict-cgi_002.sh: OK tests/cases/cdkdepict_002.inp: OK tests/cases/cdkdepict_003.opt: OK tests/cases/cdkdepict_007.inp: OK tests/cases/cdkdepict_021.opt: OK tests/cases/cdkrecharge_001.opt: OK tests/cases/cdkrecharge_002.sh: OK tests/cases/cdkrecharge_003.opt: OK tests/cases/cdkrecharge_004.opt: OK tests/cases/cdkrecharge_005.opt: OK tests/cases/cdkrecharge_006.inp: OK tests/cases/cdkrecharge_007.opt: OK tests/cases/cdkrecharge_008.inp: OK tests/cases/cdkrecharge_009.opt: OK tests/cases/cdkrecharge_010.opt: OK tests/cases/cdkrecharge_011.opt: OK tests/cases/cdkrecharge_012.inp: OK tests/cases/cdkrecharge_013.inp: OK tests/cases/cdkrecharge_014.inp: OK tests/cases/cdkrecharge_015.inp: OK tests/cases/cdkrecharge_016.sh: OK tests/cases/cdkrecharge_017.sh: OK tests/cases/cdkrecharge_018.inp: OK tests/cases/cdkrecharge_019.inp: OK tests/cases/cdkrecharge_020.inp: OK tests/cases/cdksdf2smiles_001.opt: OK tests/cases/cdksdf2smiles_002.inp: OK tests/cases/cdksdf2smiles_003.inp: OK tests/cases/cdksdf2smiles_004.inp: OK tests/cases/cdksdf2smiles_006.inp: OK tests/cases/cdksdf2smiles_008.inp: OK tests/cases/cml-to-smi_001.inp: OK tests/cases/cml-to-smi_002.inp: OK tests/cases/cml-to-smi_003.inp: OK tests/cases/cml-to-smi_004.inp: OK tests/cases/cml-to-smi_005.inp: OK tests/cases/cml-to-smi_006.inp: OK tests/cases/cml-to-smi_007.inp: OK tests/cases/cml-to-smi_008.inp: OK tests/cases/cml-to-smi_009.inp: OK tests/cases/sdf-to-smi_001.inp: OK tests/cases/sdf-to-smi_002.inp: OK tests/cases/sdf-to-smi_003.inp: OK tests/cases/sdf-to-smi_004.inp: OK tests/cases/sdf-to-smi_005.inp: OK tests/cases/sdf-to-smi_006.inp: OK tests/cases/sdf-to-smi_007.inp: OK tests/cases/sdf-to-smi_008.inp: OK tests/cases/sdf-to-smi_009.inp: OK tests/cases/sdf-to-smi_010.inp: OK tests/cases/sdf-to-smi_011.inp: OK tests/cases/sdf-to-smi_012.inp: OK tests/cases/sdf-to-smi_013.inp: OK tests/cases/sdf-to-smi_014.inp: OK tests/cases/sdf-to-smi_015.inp: OK tests/cases/smi_canonicalise_001.inp: OK tests/cases/smi_canonicalise_002.inp: OK tests/cases/smi_canonicalise_003.inp: OK tests/cases/smi_canonicalise_004.inp: OK tests/cases/smi_canonicalise_005.inp: OK tests/cases/smi_canonicalise_006.inp: OK tests/cases/smi_canonicalise_007.inp: OK tests/cases/smi_canonicalise_008.inp: OK tests/cases/smi_canonicalise_009.inp: OK tests/cases/smi_canonicalise_010.inp: OK tests/cases/smi_canonicalise_011.inp: OK tests/cases/smi_canonicalise_012.inp: OK tests/cases/smi_canonicalise_013.inp: OK tests/cases/smi_canonicalise_014.inp: OK tests/cases/smi_canonicalise_015.inp: OK tests/cases/smi_canonicalise_016.inp: OK tests/cases/smi_canonicalise_017.inp: OK tests/cases/smi_canonicalise_018.inp: OK tests/cases/smi_canonicalise_019.inp: OK tests/cases/smi_canonicalise_020.inp: OK tests/cases/smi_canonicalise_021.inp: OK tests/cases/smi_canonicalise_022.inp: OK tests/cases/smi_canonicalise_023.inp: OK tests/cases/smi_canonicalise_024.inp: OK tests/cases/smi_canonicalise_025.inp: OK tests/cases/smi_canonicalise_026.inp: OK tests/cases/smi_canonicalise_027.inp: OK tests/cases/smi_canonicalise_028.inp: OK tests/cases/smi_canonicalise_029.inp: OK tests/cases/smi_isomorphism_001.sh: OK tests/cases/smi_isomorphism_002.sh: OK tests/cases/smi_isomorphism_003.sh: OK tests/cases/smi_isomorphism_004.sh: OK tests/cases/smi_isomorphism_005.sh: OK tests/cases/smi_isomorphism_006.sh: OK tests/cases/smi_isomorphism_007.sh: OK tests/cases/smi_isomorphism_008.sh: OK tests/cases/smi_isomorphism_009.sh: OK tests/cases/smi_isomorphism_010.sh: OK tests/cases/smi_isomorphism_011.sh: OK tests/cases/smi_isomorphism_012.sh: OK tests/cases/smi_isomorphism_013.sh: OK tests/cases/smi_isomorphism_014.sh: OK tests/cases/smi_isomorphism_015.sh: OK tests/cases/smi_isomorphism_016.sh: OK tests/cases/smi_isomorphism_017.sh: FAILED: 1,12d0< scripts/smi_isomorphism: -(1) XXXXXXX: cannot represent cis/trans bond between atoms 33 and 34 as there are no eligible single bonds nearby < scripts/smi_isomorphism: -(1) XXXXXXX: cannot represent cis/trans bond between atoms 11 and 47 as there are no eligible single bonds nearby < scripts/smi_isomorphism: -(1) XXXXXXX: cannot represent cis/trans bond between atoms 19 and 20 as there are no eligible single bonds nearby < scripts/smi_isomorphism: -(1) XXXXXXX: cannot represent cis/trans bond between atoms 33 and 34 as there are no eligible single bonds nearby < scripts/smi_isomorphism: -(1) XXXXXXX: cannot represent cis/trans bond between atoms 11 and 47 as there are no eligible single bonds nearby < scripts/smi_isomorphism: -(1) XXXXXXX: cannot represent cis/trans bond between atoms 19 and 20 as there are no eligible single bonds nearby < scripts/smi_isomorphism: -(1) XXXXXXX: cannot represent cis/trans bond between atoms 11 and 47 as there are no eligible single bonds nearby < scripts/smi_isomorphism: -(1) XXXXXXX: cannot represent cis/trans bond between atoms 33 and 34 as there are no eligible single bonds nearby < scripts/smi_isomorphism: -(1) XXXXXXX: cannot represent cis/trans bond between atoms 19 and 20 as there are no eligible single bonds nearby < scripts/smi_isomorphism: -(1) XXXXXXX: cannot represent cis/trans bond between atoms 11 and 47 as there are no eligible single bonds nearby < scripts/smi_isomorphism: -(1) XXXXXXX: cannot represent cis/trans bond between atoms 33 and 34 as there are no eligible single bonds nearby < scripts/smi_isomorphism: -(1) XXXXXXX: cannot represent cis/trans bond between atoms 19 and 20 as there are no eligible single bonds nearby
tests/cases/smi_isomorphism_018.sh: OK tests/cases/smi_isomorphism_019.sh: OK tests/cases/smi_isomorphism_020.sh: OK tests/cases/smi_isomorphism_021.sh: OK tests/cases/smi_isomorphism_022.sh: OK tests/cases/smi_isomorphism_023.sh: OK tests/cases/smi_isomorphism_024.sh: OK tests/cases/smi_isomorphism_025.sh: OK tests/cases/smi_isomorphism_026.sh: OK tests/cases/smi_isomorphism_027.sh: OK tests/cases/smi_isomorphism_028.sh: OK tests/cases/smi_isomorphism_029.sh: OK tests/cases/smi_isomorphism_030.sh: OK tests/cases/smi_isomorphism_031.sh: FAILED: 1d0< scripts/smi_isomorphism: -(1) XXXXXXX: cannot represent cis/trans bond between atoms 3 and 4 as there are no eligible single bonds nearby
3d1< scripts/smi_isomorphism: -(1) XXXXXXX: cannot represent cis/trans bond between atoms 3 and 4 as there are no eligible single bonds nearby
tests/cases/smi_isomorphism_032.sh: OK tests/cases/smi_isomorphism_033.sh: OK tests/cases/smi_isomorphism_034.sh: OK tests/cases/smi_parse_001.inp: OK tests/cases/smi_parse_002.inp: OK tests/cases/smi_parse_003.sh: OK FAILED: tests/outputs/smi_isomorphism_017.diff FAILED: tests/outputs/smi_isomorphism_031.diff autopkgtest [09:23:51]: test upstream
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