Update pre-commit versions and minor style fixes

[juanitorduz]

Trying to help with the pre-commit automation #145 :)

I did some very minor style-related changes to make ruff happy :) This way we can unblock the pre-commit automation

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[juanitorduz]

Do I need to do some Cargo lock or something? Everything is failing 😅

[aseyboldt]

Thank you, that constant failing autogenerated PR was a bit annoying :-)
I think the problem is that the pipeline is now trying to build with python 3.13, but the selected version of pyo3 only allows up to 3.12. We need to update pyo3 to fix this, but because of the new free-threaded python builds this requires some code changes. They are already part of #154, and I think that will be ready to merge pretty soon (next year though), so maybe we just wait with this PR until #154 is merged?

I think we can simply delete the notebook by the way, that shouldn't really be in the repo at all at this point.

[juanitorduz]

Sounds good! Exited about #154 :)