Minimal ruff

[steven-murray]

Here I used adopt-ruff (https://github.com/ScDor/adopt-ruff) to find all the linting fixes that:

1. We're already obeying
2. Can be automatically fixed by ruff
3. We weren't already obeying and aren't auto-fixable but seemed easy enough to fix manually AND important to fix now (e.g. numpy deprecations for numpy v2)

I have not run ruff format (so no "black" style formatting) and I also ignored line-too-long errors. No functionality should be changed.

I am ignoring one file (test_xrfi_performance) which has A LOT of violations, including many "variable name not defined" which makes me think it's completely out of date and should be deleted.

There's one error that I didn't fix because I wasn't sure how to fix it (but it's definitely an error) -- an undefined variable name i.

[jsdillon]

Looks like we're failing all our tests, @steven-murray mostly related to np.random issues?

[codecov]

Codecov Report

Attention: 4 lines in your changes are missing coverage. Please review.

Comparison is base (90eb2c0) 97.07% compared to head (d2e4daa) 97.10%.

Files	Patch %	Lines
hera_qm/metrics_io.py	90.62%	3 Missing ⚠️
hera_qm/vis_metrics.py	66.66%	1 Missing ⚠️

Additional details and impacted files

@@            Coverage Diff             @@
##             main     #457      +/-   ##
==========================================
+ Coverage   97.07%   97.10%   +0.03%     
==========================================
  Files          11       11              
  Lines        3553     3527      -26     
==========================================
- Hits         3449     3425      -24     
+ Misses        104      102       -2     

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