Reduce slightly scanpy tools profile for wider instance support

[pcm32]

FOR CONTRIBUTOR:

• I have read the CONTRIBUTING.md document and this tool is appropriate for the tools-iuc repo.
• License permits unrestricted use (educational + commercial)
• This PR adds a new tool or tool collection
• This PR updates an existing tool or tool collection
• This PR does something else (explain below)

The IUC Scanpy tools are using a profile version that doesn't allow us to install them alongside our tools on some private instances that we have. I noticed that the current profile had a value outside of the described ones on the tools XML docs, so I have nudged the value to the closest lower one.

This doesn't have any impact on tools really, mostly on where they can be installed, but let me know if this merits a galaxy+<num> version bump on tools. I hope that this change is acceptable.

[pcm32]

Would it be possible to waive the old/broken URLs updates? This makes updating any old tool (and not so old by the looks of it) very laborious :-(.

[pavanvidem]

how about changing all the links to https://scanpy.readthedocs.io? For eg. https://scanpy.readthedocs.io/en/stable/api/generated/scanpy.pp.neighbors.html works

[pcm32]

That didn't cut it :-(...

[pcm32]

So it is a matter of chasing link by link, which is really a lot of time (I tried a few easy iterations on the current ones without success).... I would just remove them, people if needed can always search for scanpy's documentation and find the current one (actually the tool points to a different version of the documentation that it should, so it is not completely correct from purist point of view, but chasing that is a lot of energy). Or suggest the change in the linter to waive broken URLs if possible.

[pavanvidem]

I will update the the whole toolsuite soon. Then we will remove them. This time please accept my suggestions. Hopefully, that fixes.

[pavanvidem]

Maybe the galaxy version should be bumped now

[pcm32]

Maybe the galaxy version should be bumped now

Why? this is what I'm trying to avoid actually. Or I'm misunderstanding what you mean.

[pcm32]

Unless that the tools really require profile increases for newer functionality, the only thing it does is that it makes tools uninstallable in older instances AFAIK, reducing the potential impact of the tools.

[pcm32]

Apparently those changes did it, thanks @pavanvidem !

[pavanvidem]

I'm not sure whether changing the help is considered a wrapper update or not. Fine for me to approve as it is now.

[pcm32]

Ahh, you meant the +galaxy<num>, yes maybe we should. Tricky, not sure. The tools themselves are unchanged.

[pavanvidem]

Yes, I meant the version suffix. Let's see what others say.

[pavanvidem]

@pcm32 can you please bump the version suffix and then we are hopefully good to go

[bgruening]

Thanks @pcm32