Your message dated Tue, 6 Feb 2024 08:32:55 +0100 with message-id <zchgpqgoxopnm...@an3as.eu> and subject line qiime version 2023.9.2-1 does not show this problem any more has caused the Debian Bug report #1060965, regarding q2cli: AttributeError: module 'bibtexparser' has no attribute 'bparser' to be marked as done.
This means that you claim that the problem has been dealt with. If this is not the case it is now your responsibility to reopen the Bug report if necessary, and/or fix the problem forthwith. (NB: If you are a system administrator and have no idea what this message is talking about, this may indicate a serious mail system misconfiguration somewhere. Please contact ow...@bugs.debian.org immediately.) -- 1060965: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1060965 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: q2-feature-classifier Version: 2023.7.0-1 Severity: serious Justification: FTBFS Tags: trixie sid ftbfs User: lu...@debian.org Usertags: ftbfs-20240115 ftbfs-trixie Hi, During a rebuild of all packages in sid, your package failed to build on amd64. Relevant part (hopefully): > make[1]: Entering directory '/<<PKGBUILDDIR>>' > PYTHONPATH=/<<PKGBUILDDIR>> \ > dh_auto_test -- -s custom --test-args="cd {build_dir}; py.test-3 > --cov=q2_feature_classifier" > I: pybuild pybuild:310: python3.11 setup.py develop --install-dir > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build > running develop > /usr/lib/python3/dist-packages/setuptools/command/develop.py:40: > EasyInstallDeprecationWarning: easy_install command is deprecated. > !! > > > ******************************************************************************** > Please avoid running ``setup.py`` and ``easy_install``. > Instead, use pypa/build, pypa/installer or other > standards-based tools. > > See https://github.com/pypa/setuptools/issues/917 for details. > > ******************************************************************************** > > !! > easy_install.initialize_options(self) > /usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:66: > SetuptoolsDeprecationWarning: setup.py install is deprecated. > !! > > > ******************************************************************************** > Please avoid running ``setup.py`` directly. > Instead, use pypa/build, pypa/installer or other > standards-based tools. > > See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html > for details. > > ******************************************************************************** > > !! > self.initialize_options() > running egg_info > creating q2_feature_classifier.egg-info > writing q2_feature_classifier.egg-info/PKG-INFO > writing dependency_links to > q2_feature_classifier.egg-info/dependency_links.txt > writing entry points to q2_feature_classifier.egg-info/entry_points.txt > writing top-level names to q2_feature_classifier.egg-info/top_level.txt > writing manifest file 'q2_feature_classifier.egg-info/SOURCES.txt' > reading manifest file 'q2_feature_classifier.egg-info/SOURCES.txt' > reading manifest template 'MANIFEST.in' > adding license file 'LICENSE' > writing manifest file 'q2_feature_classifier.egg-info/SOURCES.txt' > running build_ext > Creating > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/q2-feature-classifier.egg-link > (link to .) > Adding q2-feature-classifier 2023.7.0 to easy-install.pth file > > Installed /<<PKGBUILDDIR>> > Processing dependencies for q2-feature-classifier==2023.7.0 > Finished processing dependencies for q2-feature-classifier==2023.7.0 > I: pybuild base:305: cd /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build; > py.test-3 --cov=q2_feature_classifier > ============================= test session starts > ============================== > platform linux -- Python 3.11.7, pytest-7.4.4, pluggy-1.3.0 > rootdir: /<<PKGBUILDDIR>> > plugins: cov-4.1.0 > collected 0 items / 5 errors > > ==================================== ERRORS > ==================================== > _ ERROR collecting > .pybuild/cpython3_3.11/build/q2_feature_classifier/tests/test_classifier.py _ > /usr/lib/python3.11/importlib/__init__.py:126: in import_module > return _bootstrap._gcd_import(name[level:], package, level) > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1126: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1126: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1147: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:690: in _load_unlocked > ??? > <frozen importlib._bootstrap_external>:940: in exec_module > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > q2_feature_classifier/__init__.py:15: in <module> > importlib.import_module('q2_feature_classifier.classifier') > /usr/lib/python3.11/importlib/__init__.py:126: in import_module > return _bootstrap._gcd_import(name[level:], package, level) > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1147: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:690: in _load_unlocked > ??? > <frozen importlib._bootstrap_external>:940: in exec_module > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > q2_feature_classifier/classifier.py:17: in <module> > from qiime2.plugin import Int, Str, Float, Bool, Choices, Range > /usr/lib/python3/dist-packages/qiime2/__init__.py:23: in <module> > __citations__ = tuple(Citations.load('citations.bib', package='qiime2')) > /usr/lib/python3/dist-packages/qiime2/core/cite.py:26: in load > parser = bp.bparser.BibTexParser() > E AttributeError: module 'bibtexparser' has no attribute 'bparser' > _ ERROR collecting > .pybuild/cpython3_3.11/build/q2_feature_classifier/tests/test_consensus_assignment.py > _ > /usr/lib/python3.11/importlib/__init__.py:126: in import_module > return _bootstrap._gcd_import(name[level:], package, level) > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1126: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1126: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1147: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:690: in _load_unlocked > ??? > <frozen importlib._bootstrap_external>:940: in exec_module > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > q2_feature_classifier/__init__.py:15: in <module> > importlib.import_module('q2_feature_classifier.classifier') > /usr/lib/python3.11/importlib/__init__.py:126: in import_module > return _bootstrap._gcd_import(name[level:], package, level) > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1147: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:690: in _load_unlocked > ??? > <frozen importlib._bootstrap_external>:940: in exec_module > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > q2_feature_classifier/classifier.py:18: in <module> > from q2_types.feature_data import ( > /usr/lib/python3/dist-packages/q2_types/__init__.py:18: in <module> > importlib.import_module('q2_types.multiplexed_sequences') > /usr/lib/python3.11/importlib/__init__.py:126: in import_module > return _bootstrap._gcd_import(name[level:], package, level) > /usr/lib/python3/dist-packages/q2_types/multiplexed_sequences/__init__.py:11: > in <module> > from ._format import (MultiplexedSingleEndBarcodeInSequenceDirFmt, > /usr/lib/python3/dist-packages/q2_types/multiplexed_sequences/_format.py:9: > in <module> > import qiime2.plugin.model as model > /usr/lib/python3/dist-packages/qiime2/__init__.py:23: in <module> > __citations__ = tuple(Citations.load('citations.bib', package='qiime2')) > /usr/lib/python3/dist-packages/qiime2/core/cite.py:26: in load > parser = bp.bparser.BibTexParser() > E AttributeError: module 'bibtexparser' has no attribute 'bparser' > _ ERROR collecting > .pybuild/cpython3_3.11/build/q2_feature_classifier/tests/test_custom.py _ > /usr/lib/python3.11/importlib/__init__.py:126: in import_module > return _bootstrap._gcd_import(name[level:], package, level) > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1126: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1126: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1147: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:690: in _load_unlocked > ??? > <frozen importlib._bootstrap_external>:940: in exec_module > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > q2_feature_classifier/__init__.py:15: in <module> > importlib.import_module('q2_feature_classifier.classifier') > /usr/lib/python3.11/importlib/__init__.py:126: in import_module > return _bootstrap._gcd_import(name[level:], package, level) > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1147: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:690: in _load_unlocked > ??? > <frozen importlib._bootstrap_external>:940: in exec_module > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > q2_feature_classifier/classifier.py:18: in <module> > from q2_types.feature_data import ( > /usr/lib/python3/dist-packages/q2_types/__init__.py:18: in <module> > importlib.import_module('q2_types.multiplexed_sequences') > /usr/lib/python3.11/importlib/__init__.py:126: in import_module > return _bootstrap._gcd_import(name[level:], package, level) > /usr/lib/python3/dist-packages/q2_types/multiplexed_sequences/__init__.py:11: > in <module> > from ._format import (MultiplexedSingleEndBarcodeInSequenceDirFmt, > /usr/lib/python3/dist-packages/q2_types/multiplexed_sequences/_format.py:9: > in <module> > import qiime2.plugin.model as model > /usr/lib/python3/dist-packages/qiime2/__init__.py:23: in <module> > __citations__ = tuple(Citations.load('citations.bib', package='qiime2')) > /usr/lib/python3/dist-packages/qiime2/core/cite.py:26: in load > parser = bp.bparser.BibTexParser() > E AttributeError: module 'bibtexparser' has no attribute 'bparser' > _ ERROR collecting > .pybuild/cpython3_3.11/build/q2_feature_classifier/tests/test_cutter.py _ > /usr/lib/python3.11/importlib/__init__.py:126: in import_module > return _bootstrap._gcd_import(name[level:], package, level) > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1126: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1126: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1147: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:690: in _load_unlocked > ??? > <frozen importlib._bootstrap_external>:940: in exec_module > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > q2_feature_classifier/__init__.py:15: in <module> > importlib.import_module('q2_feature_classifier.classifier') > /usr/lib/python3.11/importlib/__init__.py:126: in import_module > return _bootstrap._gcd_import(name[level:], package, level) > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1147: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:690: in _load_unlocked > ??? > <frozen importlib._bootstrap_external>:940: in exec_module > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > q2_feature_classifier/classifier.py:18: in <module> > from q2_types.feature_data import ( > /usr/lib/python3/dist-packages/q2_types/__init__.py:18: in <module> > importlib.import_module('q2_types.multiplexed_sequences') > /usr/lib/python3.11/importlib/__init__.py:126: in import_module > return _bootstrap._gcd_import(name[level:], package, level) > /usr/lib/python3/dist-packages/q2_types/multiplexed_sequences/__init__.py:11: > in <module> > from ._format import (MultiplexedSingleEndBarcodeInSequenceDirFmt, > /usr/lib/python3/dist-packages/q2_types/multiplexed_sequences/_format.py:9: > in <module> > import qiime2.plugin.model as model > /usr/lib/python3/dist-packages/qiime2/__init__.py:23: in <module> > __citations__ = tuple(Citations.load('citations.bib', package='qiime2')) > /usr/lib/python3/dist-packages/qiime2/core/cite.py:26: in load > parser = bp.bparser.BibTexParser() > E AttributeError: module 'bibtexparser' has no attribute 'bparser' > _ ERROR collecting > .pybuild/cpython3_3.11/build/q2_feature_classifier/tests/test_taxonomic_classifier.py > _ > /usr/lib/python3.11/importlib/__init__.py:126: in import_module > return _bootstrap._gcd_import(name[level:], package, level) > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1126: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1126: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1147: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:690: in _load_unlocked > ??? > <frozen importlib._bootstrap_external>:940: in exec_module > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > q2_feature_classifier/__init__.py:15: in <module> > importlib.import_module('q2_feature_classifier.classifier') > /usr/lib/python3.11/importlib/__init__.py:126: in import_module > return _bootstrap._gcd_import(name[level:], package, level) > <frozen importlib._bootstrap>:1204: in _gcd_import > ??? > <frozen importlib._bootstrap>:1176: in _find_and_load > ??? > <frozen importlib._bootstrap>:1147: in _find_and_load_unlocked > ??? > <frozen importlib._bootstrap>:690: in _load_unlocked > ??? > <frozen importlib._bootstrap_external>:940: in exec_module > ??? > <frozen importlib._bootstrap>:241: in _call_with_frames_removed > ??? > q2_feature_classifier/classifier.py:18: in <module> > from q2_types.feature_data import ( > /usr/lib/python3/dist-packages/q2_types/__init__.py:18: in <module> > importlib.import_module('q2_types.multiplexed_sequences') > /usr/lib/python3.11/importlib/__init__.py:126: in import_module > return _bootstrap._gcd_import(name[level:], package, level) > /usr/lib/python3/dist-packages/q2_types/multiplexed_sequences/__init__.py:11: > in <module> > from ._format import (MultiplexedSingleEndBarcodeInSequenceDirFmt, > /usr/lib/python3/dist-packages/q2_types/multiplexed_sequences/_format.py:9: > in <module> > import qiime2.plugin.model as model > /usr/lib/python3/dist-packages/qiime2/__init__.py:23: in <module> > __citations__ = tuple(Citations.load('citations.bib', package='qiime2')) > /usr/lib/python3/dist-packages/qiime2/core/cite.py:26: in load > parser = bp.bparser.BibTexParser() > E AttributeError: module 'bibtexparser' has no attribute 'bparser' > =============================== warnings summary > =============================== > ../../../../../../usr/lib/python3/dist-packages/qiime2/core/cite.py:10 > /usr/lib/python3/dist-packages/qiime2/core/cite.py:10: DeprecationWarning: > pkg_resources is deprecated as an API. See > https://setuptools.pypa.io/en/latest/pkg_resources.html > import pkg_resources > > ../../../../../../usr/lib/python3/dist-packages/pkg_resources/__init__.py:2871 > /usr/lib/python3/dist-packages/pkg_resources/__init__.py:2871: > DeprecationWarning: Deprecated call to > `pkg_resources.declare_namespace('flufl')`. > Implementing implicit namespace packages (as specified in PEP 420) is > preferred to `pkg_resources.declare_namespace`. See > https://setuptools.pypa.io/en/latest/references/keywords.html#keyword-namespace-packages > declare_namespace(pkg) > > ../../../../../../usr/lib/python3/dist-packages/pkg_resources/__init__.py:2871 > /usr/lib/python3/dist-packages/pkg_resources/__init__.py:2871: > DeprecationWarning: Deprecated call to > `pkg_resources.declare_namespace('mpl_toolkits')`. > Implementing implicit namespace packages (as specified in PEP 420) is > preferred to `pkg_resources.declare_namespace`. See > https://setuptools.pypa.io/en/latest/references/keywords.html#keyword-namespace-packages > declare_namespace(pkg) > > -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html > > ---------- coverage: platform linux, python 3.11.7-final-0 ----------- > Name Stmts Miss Cover > ------------------------------------------------------------------------------ > q2_feature_classifier/__init__.py 8 3 62% > q2_feature_classifier/_blast.py 54 54 0% > q2_feature_classifier/_consensus_assignment.py 43 43 0% > q2_feature_classifier/_cutter.py 100 100 0% > q2_feature_classifier/_skl.py 58 58 0% > q2_feature_classifier/_taxonomic_classifier.py 71 71 0% > q2_feature_classifier/_version.py 4 0 100% > q2_feature_classifier/_vsearch.py 91 91 0% > q2_feature_classifier/classifier.py 199 190 5% > q2_feature_classifier/custom.py 64 64 0% > q2_feature_classifier/plugin_setup.py 4 4 0% > q2_feature_classifier/tests/__init__.py 19 19 0% > q2_feature_classifier/tests/test_classifier.py 147 147 0% > q2_feature_classifier/tests/test_consensus_assignment.py 178 178 0% > q2_feature_classifier/tests/test_custom.py 40 40 0% > q2_feature_classifier/tests/test_cutter.py 67 67 0% > q2_feature_classifier/tests/test_taxonomic_classifier.py 77 77 0% > ------------------------------------------------------------------------------ > TOTAL 1224 1206 1% > > =========================== short test summary info > ============================ > ERROR q2_feature_classifier/tests/test_classifier.py - AttributeError: > module... > ERROR q2_feature_classifier/tests/test_consensus_assignment.py - > AttributeErr... > ERROR q2_feature_classifier/tests/test_custom.py - AttributeError: module > 'bi... > ERROR q2_feature_classifier/tests/test_cutter.py - AttributeError: module > 'bi... > ERROR q2_feature_classifier/tests/test_taxonomic_classifier.py - > AttributeErr... > !!!!!!!!!!!!!!!!!!! Interrupted: 5 errors during collection > !!!!!!!!!!!!!!!!!!!! > ======================== 3 warnings, 5 errors in 1.38s > ========================= > E: pybuild pybuild:391: test: plugin custom failed with: exit code=2: cd > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build; py.test-3 > --cov=q2_feature_classifier > dh_auto_test: error: pybuild --test -i python{version} -p 3.11 -s custom > "--test-args=cd {build_dir}; py.test-3 --cov=q2_feature_classifier" returned > exit code 13 The full build log is available from: http://qa-logs.debian.net/2024/01/15/q2-feature-classifier_2023.7.0-1_unstable.log All bugs filed during this archive rebuild are listed at: https://bugs.debian.org/cgi-bin/pkgreport.cgi?tag=ftbfs-20240115;users=lu...@debian.org or: https://udd.debian.org/bugs/?release=na&merged=ign&fnewerval=7&flastmodval=7&fusertag=only&fusertagtag=ftbfs-20240115&fusertaguser=lu...@debian.org&allbugs=1&cseverity=1&ctags=1&caffected=1#results 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 mark 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 mine so that we can identify if something relevant changed in the meantime.
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--- Begin Message ---Hi, qiime version 2023.9.2-1 does not show this problem any more thus closing the bug. Kind regards Andreas. -- http://fam-tille.de
--- End Message ---
