Package: src:python-cai Version: 1.0.4-1 Severity: important Tags: forky sid ftbfs User: [email protected] Usertags: ftbfs-nocheck-profile
Dear maintainer: During a rebuild of all packages in unstable using the nocheck build profile, your package failed to build. Below you will find how the build ends (probably the most relevant part, but not necessarily). If required, the full build log is available here: https://people.debian.org/~sanvila/build-logs/202509/ A wiki page discussing how to reproduce bugs in this category and possible solutions is available here: https://wiki.debian.org/qa.debian.org/FTBFS/Nocheck (It's a wiki, so you are welcome to contribute) [ Note: This is RC, but I will wait at least two weeks before raising the severities, there are a lot of gcc-15 and CMake 4 bugs open now ]. About the archive rebuild: The build was made on virtual machines from AWS, using sbuild and a reduced chroot with only build-essential packages. If you could not reproduce the bug please contact me privately, as I am willing to provide ssh access to a virtual machine where the bug is fully reproducible. If this is really a bug in one of the build-depends, please use reassign and add an affects on src:python-cai, so that this is still visible in the BTS web page for this package. Thanks. -------------------------------------------------------------------------------- [...] debian/rules clean dh clean --buildsystem pybuild dh_auto_clean -O--buildsystem=pybuild dh_autoreconf_clean -O--buildsystem=pybuild dh_clean -O--buildsystem=pybuild debian/rules binary dh binary --buildsystem pybuild dh_update_autotools_config -O--buildsystem=pybuild dh_autoreconf -O--buildsystem=pybuild dh_auto_configure -O--buildsystem=pybuild dh_auto_build -O--buildsystem=pybuild I: pybuild plugin_pyproject:129: Building wheel for python3.13 with "build" module I: pybuild base:311: python3.13 -m build --skip-dependency-check --no-isolation --wheel --outdir /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_cai * Building wheel... WARNING setuptools_scm.pyproject_reading toml section missing 'pyproject.toml does not contain a tool.setuptools_scm section' Traceback (most recent call last): File "/usr/lib/python3/dist-packages/setuptools_scm/_integration/pyproject_reading.py", line 36, in read_pyproject section = defn.get("tool", {})[tool_name] ~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^ KeyError: 'setuptools_scm' running bdist_wheel running build running build_py creating build/lib/CAI copying src/CAI/__init__.py -> build/lib/CAI copying src/CAI/CAI.py -> build/lib/CAI copying src/CAI/cli.py -> build/lib/CAI copying src/CAI/_version.py -> build/lib/CAI installing to build/bdist.linux-x86_64/wheel running install running install_lib creating build/bdist.linux-x86_64/wheel creating build/bdist.linux-x86_64/wheel/CAI copying build/lib/CAI/__init__.py -> build/bdist.linux-x86_64/wheel/./CAI copying build/lib/CAI/CAI.py -> build/bdist.linux-x86_64/wheel/./CAI copying build/lib/CAI/cli.py -> build/bdist.linux-x86_64/wheel/./CAI copying build/lib/CAI/_version.py -> build/bdist.linux-x86_64/wheel/./CAI running install_egg_info running egg_info creating src/CAI.egg-info writing src/CAI.egg-info/PKG-INFO writing dependency_links to src/CAI.egg-info/dependency_links.txt writing entry points to src/CAI.egg-info/entry_points.txt writing requirements to src/CAI.egg-info/requires.txt writing top-level names to src/CAI.egg-info/top_level.txt writing manifest file 'src/CAI.egg-info/SOURCES.txt' reading manifest file 'src/CAI.egg-info/SOURCES.txt' adding license file 'LICENSE.txt' writing manifest file 'src/CAI.egg-info/SOURCES.txt' Copying src/CAI.egg-info to build/bdist.linux-x86_64/wheel/./CAI-1.0.4.egg-info running install_scripts creating build/bdist.linux-x86_64/wheel/cai-1.0.4.dist-info/WHEEL creating '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_cai/.tmp-wred7583/cai-1.0.4-py3-none-any.whl' and adding 'build/bdist.linux-x86_64/wheel' to it adding 'CAI/CAI.py' adding 'CAI/__init__.py' adding 'CAI/_version.py' adding 'CAI/cli.py' adding 'cai-1.0.4.dist-info/licenses/LICENSE.txt' adding 'cai-1.0.4.dist-info/METADATA' adding 'cai-1.0.4.dist-info/WHEEL' adding 'cai-1.0.4.dist-info/entry_points.txt' adding 'cai-1.0.4.dist-info/top_level.txt' adding 'cai-1.0.4.dist-info/RECORD' removing build/bdist.linux-x86_64/wheel Successfully built cai-1.0.4-py3-none-any.whl I: pybuild plugin_pyproject:144: Unpacking wheel built for python3.13 with "installer" module dh: command-omitted: The call to "dh_auto_test -O--buildsystem=pybuild" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=pybuild dh_prep -O--buildsystem=pybuild dh_auto_install -O--buildsystem=pybuild I: pybuild plugin_pyproject:178: Copying package built for python3.13 to destdir debian/rules override_dh_installdocs make[1]: Entering directory '/<<PKGBUILDDIR>>' PATH=/<<PKGBUILDDIR>>/debian/python3-cai/usr/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games PYTHONPATH=/<<PKGBUILDDIR>>/src python3 -m sphinx -N -bhtml docs build/html Running Sphinx v8.2.3 WARNING: Invalid configuration value found: 'language = None'. Update your configuration to a valid language code. Falling back to 'en' (English). loading translations [en]... done making output directory... done WARNING: html_static_path entry '_static' does not exist Converting `source_suffix = '.rst'` to `source_suffix = {'.rst': 'restructuredtext'}`. loading intersphinx inventory 'python' from https://docs.python.org/objects.inv ... intersphinx inventory has moved: https://docs.python.org/objects.inv -> https://docs.python.org/3/objects.inv building [mo]: targets for 0 po files that are out of date writing output... building [html]: targets for 5 source files that are out of date updating environment: [new config] 5 added, 0 changed, 0 removed reading sources... [ 20%] api reading sources... [ 40%] cli reading sources... [ 60%] index reading sources... [ 80%] license reading sources... [100%] usage WARNING: autodoc: failed to import module 'CAI'; the following exception was raised: ['Traceback (most recent call last):\n', ' File "/usr/lib/p [too-long-redacted] io'\n"] [autodoc.import_object] WARNING: Unexpected return code 1 from command Command(command=('CAI', '--help'), shell=False, hide_standard_error=False, working_directory='/<<PKGBUILDDIR>>/docs') (output='Traceback (most recent call last):\n File "/<<PKGBUILDDIR>>/debian/python3-cai/usr/bin/CAI", line 5, in <module>\n from CAI.cli import cli\n File "/<<PKGBUILDDIR>>/src/CAI/__init__.py", line 7, in <module>\n from .CAI import RSCU, relative_adaptiveness, CAI\n File "/<<PKGBUILDDIR>>/src/CAI/CAI.py", line 2, in <module>\n import Bio.Data.CodonTable as ct\nModuleNotFoundError: No module named \'Bio\'') looking for now-outdated files... none found pickling environment... done checking consistency... done preparing documents... done copying assets... copying static files... Writing evaluated template result to /<<PKGBUILDDIR>>/build/html/_static/basic.css Writing evaluated template result to /<<PKGBUILDDIR>>/build/html/_static/language_data.js Writing evaluated template result to /<<PKGBUILDDIR>>/build/html/_static/documentation_options.js Writing evaluated template result to /<<PKGBUILDDIR>>/build/html/_static/alabaster.css copying static files: done copying extra files... copying extra files: done copying assets: done writing output... [ 20%] api writing output... [ 40%] cli writing output... [ 60%] index writing output... [ 80%] license writing output... [100%] usage generating indices... genindex done writing additional pages... search done dumping search index in English (code: en)... done dumping object inventory... done build succeeded, 4 warnings. The HTML pages are in build/html. find build/html -name .doctrees | xargs --no-run-if-empty rm -rf dh_installdocs dh_installdocs -p python-cai-doc --doc-main-package python3-cai build/html make[1]: Leaving directory '/<<PKGBUILDDIR>>' dh_sphinxdoc -O--buildsystem=pybuild dh_installchangelogs -O--buildsystem=pybuild debian/rules override_dh_installman make[1]: Entering directory '/<<PKGBUILDDIR>>' PYTHONPATH=src help2man debian/python3-cai/usr/bin/CAI --no-info \ --name 'calculate codon adaptation index for a DNA sequence' \ --version-string "1.0.4" > CAI.1 help2man: can't get `--help' info from debian/python3-cai/usr/bin/CAI Try `--no-discard-stderr' if option outputs to stderr make[1]: *** [debian/rules:17: override_dh_installman] Error 1 make[1]: Leaving directory '/<<PKGBUILDDIR>>' make: *** [debian/rules:8: binary] Error 2 dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2 --------------------------------------------------------------------------------
