refactor: update ruff to 0.3.4

[kenibrewer]

Description

This updates ruff to the latest version and applies the formatting to pycytominer repo. This set of changes are formatting/whitespace only.

What is the nature of your change?

• Bug fix (fixes an issue).
• Enhancement (adds functionality).
• Breaking change (fix or feature that would cause existing functionality to not work as expected).
• This change requires a documentation update.

Checklist

Please ensure that all boxes are checked before indicating that a pull request is ready for review.

• I have read the CONTRIBUTING.md guidelines.
• My code follows the style guidelines of this project.
• I have performed a self-review of my own code.
• I have commented my code, particularly in hard-to-understand areas.
• I have made corresponding changes to the documentation.
• My changes generate no new warnings.
• New and existing unit tests pass locally with my changes.
• I have added tests that prove my fix is effective or that my feature works.
• I have deleted all non-relevant text in this pull request template.

[codecov-commenter]

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 94.96%. Comparing base (af5a4ef) to head (3c5eafd).
Report is 2 commits behind head on main.

Additional details and impacted files

@@           Coverage Diff           @@
##             main     #386   +/-   ##
=======================================
  Coverage   94.96%   94.96%           
=======================================
  Files          56       56           
  Lines        3137     3137           
=======================================
  Hits         2979     2979           
  Misses        158      158           

Flag	Coverage Δ
unittests	94.96% <100.00%> (ø)

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[d33bs]

Nice job, LGTM, only had a minor comment about where the versions might be specified for ruff. Please don't hesitate to let me know if you have any questions.