planemo 0.74.11 fails with Python 3.10: AttributeError: module 'collections' has no attribute 'Callable'

[pvanheus]

When trying to run planemo test with Python 3.10, nose (a dependency of the Galaxy config that planemo installs) tries to refer to collections.Callable leading to an error because, since Python 3.3, Callable has been in collections.abc, not collections. The deprecation of collections.Callable finally resulted in it not being available as an import in Python 3.10.

Upstream, Galaxy is dropping nose support (see this PR: galaxyproject/galaxy#13909) and this problem will be resolved as part of that process. This issue is being reported to offer a work-around and to explain what is behind the above-mentioned error.

Two workarounds are apparent:

1. Use a Python version < 3.10 to run planemo.
2. Patch nose 1.3.7 with this patch

The first of these is preferred.

[nsoranzo]

Thanks @pvanheus for documenting this issue! The first step is going to be merging #1232 .

[mvdbeek]

Still need a new release, but indeed this should be fixed with #1232