[Debian-med-packaging] Bug#997772: python-cogent: FTBFS: You must configure the bibtex_bibfiles setting

[Andreas Tille]

Control: tags -1 pending

Hi Stuart,

Am Wed, Nov 03, 2021 at 09:43:40AM +1100 schrieb Stuart Prescott:
> > > > Extension error:
> > > > You must configure the bibtex_bibfiles setting
> > > > make[2]: *** [Makefile:40: html] Error 2
> 
> this is sphinxcontrib-bibtex saying that you need to add the following to 
> doc/conf.py:
> 
> bibtex_bibfiles = "path/to/references.bib"
> 
> However I can't see a .bib file anywhere in the source. I also can't see any 
> code in the rst files or the docstrings that would actually use sphinxcontrib-
> bibtex so I'm not sure how this extension is actually used in these documents. 
> Perhaps it isn't actually needed at all.

Thanks for the good hint which helped me over this issue[1].  Unfortunately
now dh_auto_install has an issue that did not occured before:


   dh_auto_install -O--buildsystem=pybuild
I: pybuild base:232: /usr/bin/python3 setup.py install --root /build/python-cogent-2021.5.7a+dfsg/debian/python3-cogent3 
/usr/lib/python3/dist-packages/setuptools/dist.py:487: UserWarning: Normalizing '2021.5.7a' to '2021.5.7a0'
  warnings.warn(tmpl.format(**locals()))
running install
running build
running build_py
running install_lib
creating /build/python-cogent-2021.5.7a+dfsg/debian/python3-cogent3
creating /build/python-cogent-2021.5.7a+dfsg/debian/python3-cogent3/usr
...
byte-compiling /build/python-cogent-2021.5.7a+dfsg/debian/python3-cogent3/usr/lib/python3.9/dist-packages/cogent3/phylo/least_squares.py to least_squares.cpython-39.pyc
running install_egg_info
running egg_info
creating src/cogent3.egg-info
writing src/cogent3.egg-info/PKG-INFO
Traceback (most recent call last):
  File "/build/python-cogent-2021.5.7a+dfsg/setup.py", line 52, in <module>
    setup(
  File "/usr/lib/python3/dist-packages/setuptools/__init__.py", line 153, in setup
    return distutils.core.setup(**attrs)
  File "/usr/lib/python3.9/distutils/core.py", line 148, in setup
    dist.run_commands()
  File "/usr/lib/python3.9/distutils/dist.py", line 966, in run_commands
    self.run_command(cmd)
  File "/usr/lib/python3.9/distutils/dist.py", line 985, in run_command
    cmd_obj.run()
  File "/usr/lib/python3/dist-packages/setuptools/command/install.py", line 61, in run
    return orig.install.run(self)
  File "/usr/lib/python3.9/distutils/command/install.py", line 602, in run
    self.run_command(cmd_name)
  File "/usr/lib/python3.9/distutils/cmd.py", line 313, in run_command
    self.distribution.run_command(command)
  File "/usr/lib/python3.9/distutils/dist.py", line 985, in run_command
    cmd_obj.run()
  File "/usr/lib/python3/dist-packages/setuptools/command/install_egg_info.py", line 51, in run
    self.run_command('egg_info')
  File "/usr/lib/python3.9/distutils/cmd.py", line 313, in run_command
    self.distribution.run_command(command)
  File "/usr/lib/python3.9/distutils/dist.py", line 985, in run_command
    cmd_obj.run()
  File "/usr/lib/python3/dist-packages/setuptools/command/egg_info.py", line 292, in run
    writer(self, ep.name, os.path.join(self.egg_info, ep.name))
  File "/usr/lib/python3/dist-packages/setuptools/command/egg_info.py", line 635, in write_pkg_info
    metadata.write_pkg_info(cmd.egg_info)
  File "/usr/lib/python3.9/distutils/dist.py", line 1117, in write_pkg_info
    self.write_pkg_file(pkg_info)
  File "/usr/lib/python3/dist-packages/setuptools/dist.py", line 182, in write_pkg_file
    license = rfc822_escape(self.get_license())
  File "/usr/lib/python3.9/distutils/util.py", line 476, in rfc822_escape
    lines = header.split('\n')
AttributeError: 'list' object has no attribute 'split'
E: pybuild pybuild:354: install: plugin distutils failed with: exit code=1: /usr/bin/python3 setup.py install --root /build/python-cogent-2021.5.7a+dfsg/debian/python3-cogent3 
dh_auto_install: error: pybuild --install -i python{version} -p 3.9 --dest-dir /build/python-cogent-2021.5.7a\+dfsg/debian/tmp returned exit code 13


Any idea what might be wrong here?

Kind regards

     Andreas.


[1] https://salsa.debian.org/med-team/python-cogent/-/commit/43aa41a0fbce1643211bd69ec6ecaca209397753

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