Fix up ruff pre-commit checks to operate on notebooks

[drbenvincent]

• Closes Check pre-commit ruff formatting for notebooks is set up correctly #340
• Removes nbQA pre-commit check - was failing to properly ruff format notebooks
• Replaced with ruff-pre-commit hook, https://github.com/astral-sh/ruff-pre-commit
• Also includes the formatting applied to existing notebooks

[review-notebook-app]

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Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 79.98%. Comparing base (1648681) to head (c9b2a34).

Additional details and impacted files

@@           Coverage Diff           @@
##             main     #352   +/-   ##
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  Coverage   79.98%   79.98%           
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  Files          21       21           
  Lines        1634     1634           
=======================================
  Hits         1307     1307           
  Misses        327      327           

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[NathanielF]

Makes sense