Package: src:plip
Version: 2.4.0+dfsg-2
Severity: serious
Tags: ftbfs trixie sid
Dear maintainer:
During a rebuild of all packages in unstable, your package failed to build:
--------------------------------------------------------------------------------
[...]
debian/rules clean
dh clean --buildsystem=pybuild
dh_auto_clean -O--buildsystem=pybuild
pybuild --clean -i python{version} -p 3.13
I: pybuild base:311: python3.13 setup.py clean
/usr/lib/python3/dist-packages/setuptools/dist.py:599:
SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in
'metadata' (setup.cfg), please use the underscore name 'description_file'
instead.
!!
********************************************************************************
Usage of dash-separated 'description-file' will not be supported in
future
versions. Please use the underscore name 'description_file' instead.
By 2026-Mar-03, you need to update your project and remove deprecated
calls
or your builds will no longer be supported.
See
https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for
details.
********************************************************************************
!!
opt = self._enforce_underscore(opt, section)
/usr/lib/python3/dist-packages/setuptools/dist.py:599:
SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in
'metadata' (setup.cfg), please use the underscore name 'description_file'
instead.
!!
********************************************************************************
Usage of dash-separated 'description-file' will not be supported in
future
versions. Please use the underscore name 'description_file' instead.
(Affected: plip).
By 2026-Mar-03, you need to update your project and remove deprecated
calls
or your builds will no longer be supported.
See
https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for
details.
********************************************************************************
!!
opt = self._enforce_underscore(opt, section)
/usr/lib/python3/dist-packages/setuptools/dist.py:759:
SetuptoolsDeprecationWarning: License classifiers are deprecated.
!!
********************************************************************************
Please consider removing the following classifiers in favor of a SPDX
license expression:
License :: OSI Approved :: GNU General Public License v2 (GPLv2)
See
https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license
for details.
********************************************************************************
!!
self._finalize_license_expression()
running clean
removing '/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build' (and everything
under it)
'build/bdist.linux-x86_64' does not exist -- can't clean it
'build/scripts-3.13' does not exist -- can't clean it
rm -rf .pybuild/
find . -name \*.pyc -exec rm {} \;
dh_autoreconf_clean -O--buildsystem=pybuild
dh_clean -O--buildsystem=pybuild
rm -f debian/debhelper-build-stamp
rm -rf debian/.debhelper/
rm -f -- debian/plip.substvars debian/files
rm -fr -- debian/plip/ debian/tmp/
find . \( \( \
\( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path
.\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o
-type f -a \
\( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \
-o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \
-o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \
-o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \
\) -exec rm -f {} + \) -o \
\( -type d -a \( -name autom4te.cache -o -name __pycache__ \)
-prune -exec rm -rf {} + \) \)
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
pybuild --configure -i python{version} -p 3.13
I: pybuild base:311: python3.13 setup.py config
/usr/lib/python3/dist-packages/setuptools/dist.py:599:
SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in
'metadata' (setup.cfg), please use the underscore name 'description_file'
instead.
!!
********************************************************************************
Usage of dash-separated 'description-file' will not be supported in
future
versions. Please use the underscore name 'description_file' instead.
By 2026-Mar-03, you need to update your project and remove deprecated
calls
or your builds will no longer be supported.
See
https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for
details.
********************************************************************************
!!
opt = self._enforce_underscore(opt, section)
/usr/lib/python3/dist-packages/setuptools/dist.py:599:
SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in
'metadata' (setup.cfg), please use the underscore name 'description_file'
instead.
!!
********************************************************************************
Usage of dash-separated 'description-file' will not be supported in
future
versions. Please use the underscore name 'description_file' instead.
(Affected: plip).
By 2026-Mar-03, you need to update your project and remove deprecated
calls
or your builds will no longer be supported.
See
https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for
details.
********************************************************************************
!!
opt = self._enforce_underscore(opt, section)
/usr/lib/python3/dist-packages/setuptools/dist.py:759:
SetuptoolsDeprecationWarning: License classifiers are deprecated.
!!
********************************************************************************
Please consider removing the following classifiers in favor of a SPDX
license expression:
License :: OSI Approved :: GNU General Public License v2 (GPLv2)
See
https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license
for details.
********************************************************************************
!!
self._finalize_license_expression()
running config
dh_auto_build -O--buildsystem=pybuild
pybuild --build -i python{version} -p 3.13
I: pybuild base:311: /usr/bin/python3 setup.py build
/usr/lib/python3/dist-packages/setuptools/dist.py:599:
SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in
'metadata' (setup.cfg), please use the underscore name 'description_file'
instead.
!!
********************************************************************************
Usage of dash-separated 'description-file' will not be supported in
future
versions. Please use the underscore name 'description_file' instead.
By 2026-Mar-03, you need to update your project and remove deprecated
calls
or your builds will no longer be supported.
See
https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for
details.
********************************************************************************
!!
opt = self._enforce_underscore(opt, section)
/usr/lib/python3/dist-packages/setuptools/dist.py:599:
SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in
'metadata' (setup.cfg), please use the underscore name 'description_file'
instead.
!!
********************************************************************************
Usage of dash-separated 'description-file' will not be supported in
future
versions. Please use the underscore name 'description_file' instead.
(Affected: plip).
By 2026-Mar-03, you need to update your project and remove deprecated
calls
or your builds will no longer be supported.
See
https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for
details.
********************************************************************************
!!
opt = self._enforce_underscore(opt, section)
/usr/lib/python3/dist-packages/setuptools/dist.py:759:
SetuptoolsDeprecationWarning: License classifiers are deprecated.
!!
********************************************************************************
Please consider removing the following classifiers in favor of a SPDX
license expression:
License :: OSI Approved :: GNU General Public License v2 (GPLv2)
See
https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license
for details.
********************************************************************************
!!
self._finalize_license_expression()
running build
running build_py
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip
copying plip/plipcmd.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip
copying plip/__init__.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/exchange
copying plip/exchange/xml.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/exchange
copying plip/exchange/json.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/exchange
copying plip/exchange/webservices.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/exchange
copying plip/exchange/report.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/exchange
copying plip/exchange/__init__.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/exchange
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/basic
copying plip/basic/parallel.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/basic
copying plip/basic/logger.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/basic
copying plip/basic/remote.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/basic
copying plip/basic/config.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/basic
copying plip/basic/supplemental.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/basic
copying plip/basic/__init__.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/basic
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test
copying plip/test/test_hydrogen_bonds.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test
copying plip/test/test_literature_validated.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test
copying plip/test/test_remote_services.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test
copying plip/test/test_structure_processing.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test
copying plip/test/test_basic_functions.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test
copying plip/test/test_pi_stacking.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test
copying plip/test/test_water_bridges.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test
copying plip/test/test_visualization.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test
copying plip/test/test_command_line.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test
copying plip/test/test_xml_writer.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test
copying plip/test/test_xml_parser.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test
copying plip/test/test_salt_bridges.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test
copying plip/test/test_metal_coordination.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test
copying plip/test/test_intra.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test
copying plip/test/__init__.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/visualization
copying plip/visualization/pymol.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/visualization
copying plip/visualization/chimera.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/visualization
copying plip/visualization/visualize.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/visualization
copying plip/visualization/__init__.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/visualization
creating /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/structure
copying plip/structure/preparation.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/structure
copying plip/structure/detection.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/structure
copying plip/structure/__init__.py ->
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/structure
running build_scripts
creating build/scripts-3.13
copying and adjusting plip/plipcmd.py -> build/scripts-3.13
changing mode of build/scripts-3.13/plipcmd.py from 644 to 755
debian/rules override_dh_auto_test
make[1]: Entering directory '/<<PKGBUILDDIR>>'
# skip all other tests since they require exluded pdb files
export PYTHONPATH=/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/; \
debian/tests/xml-parser
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
create-stamp debian/debhelper-build-stamp
dh_testroot -O--buildsystem=pybuild
dh_prep -O--buildsystem=pybuild
rm -f -- debian/plip.substvars
rm -fr -- debian/.debhelper/generated/plip/ debian/plip/ debian/tmp/
debian/rules override_dh_auto_install
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_install
install -m0755 -d /<<BUILDDIR>>/plip-2.4.0\+dfsg/debian/plip
pybuild --install -i python{version} -p 3.13
--dest-dir=/<<BUILDDIR>>/plip-2.4.0\+dfsg/debian/plip
I: pybuild base:311: /usr/bin/python3 setup.py install --root
/<<PKGBUILDDIR>>/debian/plip
/usr/lib/python3/dist-packages/setuptools/dist.py:599:
SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in
'metadata' (setup.cfg), please use the underscore name 'description_file'
instead.
!!
********************************************************************************
Usage of dash-separated 'description-file' will not be supported in
future
versions. Please use the underscore name 'description_file' instead.
By 2026-Mar-03, you need to update your project and remove deprecated
calls
or your builds will no longer be supported.
See
https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for
details.
********************************************************************************
!!
opt = self._enforce_underscore(opt, section)
/usr/lib/python3/dist-packages/setuptools/dist.py:599:
SetuptoolsDeprecationWarning: Invalid dash-separated key 'description-file' in
'metadata' (setup.cfg), please use the underscore name 'description_file'
instead.
!!
********************************************************************************
Usage of dash-separated 'description-file' will not be supported in
future
versions. Please use the underscore name 'description_file' instead.
(Affected: plip).
By 2026-Mar-03, you need to update your project and remove deprecated
calls
or your builds will no longer be supported.
See
https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for
details.
********************************************************************************
!!
opt = self._enforce_underscore(opt, section)
/usr/lib/python3/dist-packages/setuptools/dist.py:759:
SetuptoolsDeprecationWarning: License classifiers are deprecated.
!!
********************************************************************************
Please consider removing the following classifiers in favor of a SPDX
license expression:
License :: OSI Approved :: GNU General Public License v2 (GPLv2)
See
https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license
for details.
********************************************************************************
!!
self._finalize_license_expression()
running install
/usr/lib/python3/dist-packages/setuptools/_distutils/cmd.py:90:
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 build
running build_py
running build_scripts
running install_lib
creating /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages
creating /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip
creating
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/exchange
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/exchange/xml.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/exchange
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/exchange/json.py ->
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/exchange
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/exchange/webservices.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/exchange
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/exchange/report.py ->
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/exchange
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/exchange/__init__.py ->
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/exchange
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/plipcmd.py ->
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip
creating
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/basic
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/basic/parallel.py ->
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/basic
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/basic/logger.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/basic
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/basic/remote.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/basic
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/basic/config.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/basic
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/basic/supplemental.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/basic
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/basic/__init__.py ->
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/basic
creating /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test/test_hydrogen_bonds.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test/test_literature_validated.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test/test_remote_services.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test/test_structure_processing.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test/test_basic_functions.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test/test_pi_stacking.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test/test_water_bridges.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test/test_visualization.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test/test_command_line.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test/test_xml_writer.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test/test_xml_parser.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test/test_salt_bridges.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test/test_metal_coordination.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test/test_intra.py ->
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/test/__init__.py ->
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test
creating
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/visualization
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/visualization/pymol.py
->
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/visualization
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/visualization/chimera.py
->
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/visualization
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/visualization/visualize.py
->
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/visualization
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/visualization/__init__.py
->
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/visualization
copying /<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/__init__.py ->
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip
creating
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/structure
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/structure/preparation.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/structure
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/structure/detection.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/structure
copying
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.13_plip/build/plip/structure/__init__.py
-> /<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/structure
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/exchange/xml.py
to xml.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/exchange/json.py
to json.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/exchange/webservices.py
to webservices.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/exchange/report.py
to report.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/exchange/__init__.py
to __init__.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/plipcmd.py
to plipcmd.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/basic/parallel.py
to parallel.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/basic/logger.py
to logger.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/basic/remote.py
to remote.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/basic/config.py
to config.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/basic/supplemental.py
to supplemental.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/basic/__init__.py
to __init__.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test/test_hydrogen_bonds.py
to test_hydrogen_bonds.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test/test_literature_validated.py
to test_literature_validated.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test/test_remote_services.py
to test_remote_services.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test/test_structure_processing.py
to test_structure_processing.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test/test_basic_functions.py
to test_basic_functions.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test/test_pi_stacking.py
to test_pi_stacking.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test/test_water_bridges.py
to test_water_bridges.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test/test_visualization.py
to test_visualization.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test/test_command_line.py
to test_command_line.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test/test_xml_writer.py
to test_xml_writer.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test/test_xml_parser.py
to test_xml_parser.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test/test_salt_bridges.py
to test_salt_bridges.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test/test_metal_coordination.py
to test_metal_coordination.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test/test_intra.py
to test_intra.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/test/__init__.py
to __init__.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/visualization/pymol.py
to pymol.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/visualization/chimera.py
to chimera.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/visualization/visualize.py
to visualize.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/visualization/__init__.py
to __init__.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/__init__.py
to __init__.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/structure/preparation.py
to preparation.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/structure/detection.py
to detection.cpython-313.pyc
byte-compiling
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip/structure/__init__.py
to __init__.cpython-313.pyc
running install_egg_info
running egg_info
creating plip.egg-info
writing plip.egg-info/PKG-INFO
writing dependency_links to plip.egg-info/dependency_links.txt
writing entry points to plip.egg-info/entry_points.txt
writing requirements to plip.egg-info/requires.txt
writing top-level names to plip.egg-info/top_level.txt
writing manifest file 'plip.egg-info/SOURCES.txt'
reading manifest file 'plip.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
adding license file 'LICENSE.txt'
writing manifest file 'plip.egg-info/SOURCES.txt'
Copying plip.egg-info to
/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/plip-2.4.0.egg-info
Skipping SOURCES.txt
running install_scripts
creating /<<PKGBUILDDIR>>/debian/plip/usr/bin
copying build/scripts-3.13/plipcmd.py -> /<<PKGBUILDDIR>>/debian/plip/usr/bin
changing mode of /<<PKGBUILDDIR>>/debian/plip/usr/bin/plipcmd.py to 755
Installing plip script to /<<PKGBUILDDIR>>/debian/plip/usr/bin
rm -rvf /<<PKGBUILDDIR>>/debian/plip/usr/bin/plip
removed '/<<PKGBUILDDIR>>/debian/plip/usr/bin/plip'
mv /<<PKGBUILDDIR>>/debian/plip/usr/bin/plipcmd.py \
/<<PKGBUILDDIR>>/debian/plip/usr/bin/plipcmd
mkdir -p /<<PKGBUILDDIR>>/debian/plip/usr/share/man/man1
export
PYTHONPATH=/<<PKGBUILDDIR>>/debian/plip/usr/lib/python3.13/dist-packages/:\
/<<PKGBUILDDIR>>/plip/modules; \
help2man --no-info --no-discard-stderr --version-string="2.4.0+dfsg-2"
--name='Protein-Ligand Interaction Profiler (PLIP)' \
/<<PKGBUILDDIR>>/debian/plip/usr/bin/plipcmd >
/<<PKGBUILDDIR>>/debian/plip/usr/share/man/man1/plipcmd.1
help2man: can't get `--help' info from
/<<PKGBUILDDIR>>/debian/plip/usr/bin/plipcmd
make[1]: *** [debian/rules:19: override_dh_auto_install] Error 2
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
make: *** [debian/rules:6: binary] Error 2
dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2
--------------------------------------------------------------------------------
The above is just how the build ends and not necessarily the most relevant part.
If required, the full build log is available here:
https://people.debian.org/~sanvila/build-logs/202504/
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:plip, so that this is still
visible in the BTS web page for this package.
Thanks.
