Dear Maintainers,

python3-pkg-resources is obsolete and slowly beeign removed from Debian.

It was the runtime part of older setuptools.

The extraneous dependency of python3-numpy over python3-pkg-resources
was removed in numpy upload 1:1.26.4+ds-13.

This broke an handfull of packages that expected pkg_resources to be there.

https://qa.debian.org/excuses.php?package=numpy

I fixed a bunch right now,
but I can't fix python3-pdbfixer
so easily because the previous release
already has another RC bug.

So I'm filling this bug to request some help
from the team.

Greetings,

Alexandre

It would be easier if you hadn't pushed a new upstream version to git
before checking whether it had any new dependencies that aren't
satisfied yet in Debian (it needs python3-openmm >= 8.2).  Things are
always easier when the default branch remains buildable.

What other RC bug are you referring to?  I guess maybe
https://bugs.debian.org/1061826?  But I think that's actually been fixed
in openmm already - I don't see any distutils imports in its code any
more.

I think all that's needed is to branch from 1.9-4 (BTW, you forgot to
push the debian/1.9-4 tag), add the missing Depends:
python3-pkg-resources, and upload that as 1.9-5.  Does that sound right
to you?

Maybe also file a wishlist bug on openmm to upgrade to the new upstream
version.

Hi,

I was referring to #1061826.

I hadn't noticed that the error lies in openmm itself;
that was the source of my complete confusion.

So yes, openmm definitively needs to be fixed first.

623s /usr/lib/python3/dist-packages/openmm/app/gromacstopfile.py:45: in
<module>
623s     import distutils.spawn
623s E   ModuleNotFoundError: No module named 'distutils'

Le dim. 19 janv. 2025 à 16:11, Colin Watson <cjwatson@debian.org> a écrit :

My point was that this already seems to have been fixed in openmm some
time ago, though.

Hello,

While update to python-pdbfixer/1.11 would indeed be nice to have, it is
blocked by the need to package openmm/8.2.0 (#1095955) which I would
better defer to post-trixie. See #1095955 for argumentation.

Other details of the current bug are confusing to me. The package was
not reported to FTBFS during rebuilds since, thus not sure why 'tags:
ftbfs'. Next, I notice the request to drop dependency on
python3-setuptools. Are they being removed in trixie? Sorry, I might
have lost track. If neither of these issues are important for trixie, I
would go for 'severity: wishlist'.

Thank you for caring after python-pdbfixer. This bug report flew under
my radar somehow.

Best,
Andrius