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MNT: resolve ruff version sync issues
Remove ruff dep from pyproject.toml, since that will be installed * by pre-commit anyway locally if used * in CI where it is used to run lint and format checks Now we make sure that we install the pre-commit ruff version in CI to have one source of truth for the version. Hopefully dependabot will support .pre-commit-config.yaml (dependabot/dependabot-core#1524) some day. For now we use pre-commit.ci or manual pre-commit autoupdate.
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