Ruff linting and formatting

[axelstudios]

What's this PR do?

• Added Ruff as the Python linter/formatter for hugely improved code consistency, which replaces flake8/autoflake/isort/etc
  • To lint SEED's python files: tox -e precommit -- ruff
  • To reformat SEED's python files: tox -e precommit -- ruff-format
• Updated spelling list
• Replaced docker-compose calls with docker compose
• Excluded third-party packages in /src/* from MyPy testing
• Removed unused code
• Fixed typos
• Fixed npm-shrinkwrap.json references
• Updated documentation

How should this be manually tested?

The CI should pass