IMPR: Modernize pre-commit

[d-v-b]

A few opportunities to improve the pre-commit hooks:

• use pyproject.toml to configure as many hooks as possible instead of relying on tool-specific config files (like .codespellrc)
• use ruff format instead of black. it's much faster.
• use ruff instead of flake8. ruff is faster.
• Apply safe linting changes immediately instead of just showing the diff. this is a faster workflow.