Fixes and cleanups after applying Copier templates

[AndrewSazonov]

This PR contains a set of follow-up fixes and adjustments after applying the updated Copier templates.

Changes

• Adapted the project to the updated Copier template structure (see https://github.com/easyscience/templates for details)

• CI runs on Python 3.11 and 3.12, with 3.12 as the default.

• Updated reset_global_object in conftest.py. This is a temporary workaround that requires running pytest with the --cov= --cov-report= flags to pass, but it speeds up unit tests by roughly 5–10×.
  Can be run as:

  pixi run unit-tests

• Enabled Ruff linting and formatting checks (see pyproject.toml) and updated the codebase to comply with them.

• Temporarily disabled pre-commit and pre-push hooks to ease the transition.
  They can be re-enabled later with:

  pixi run pre-commit-install

• Added missing documentation assets and fixed several docs issues, allowing the docs to auto-build successfully at:
  https://easyscience.github.io/dynamics-lib/dev/

• All documentation versions are now stored in a dedicated gh-pages branch (https://github.com/easyscience/dynamics-lib/tree/gh-pages). The branch contains subfolders named after each release tag, as well as a dev subfolder used for all branches (feature branches, develop, and master).

• Jupyter notebook examples have been moved from examples/ to docs/docs/tutorials/ as they are now part of the built documentation.
  To run them locally from the project root (Use the pixi kernel when running the notebooks):

  pixi run jupyter lab docs/docs/tutorials/

• Fixed several broken CI workflows

[codecov]

Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 97.66%. Comparing base (64b054b) to head (6877efe).
⚠️ Report is 3 commits behind head on develop.

Additional details and impacted files

@@             Coverage Diff             @@
##           develop      #82      +/-   ##
===========================================
- Coverage    98.10%   97.66%   -0.44%     
===========================================
  Files           21       28       +7     
  Lines         1055     1458     +403     
  Branches         0      237     +237     
===========================================
+ Hits          1035     1424     +389     
+ Misses          20       19       -1     
- Partials         0       15      +15     

Flag	Coverage Δ
integration	0.00% <ø> (?)
unittests	97.66% <ø> (-0.44%)	⬇️

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[henrikjacobsenfys]

Looks good to me!

Thanks for all of it, also for the improved fix of the global map problem I've been having.

I don't dare merge it myself ;)