pre-commit, tox: Bump pre-commit, codespell, black and flake8

• pre-commit from 4.1.0 to 4.3.0,
• codespell from 2.2.1 to 2.2.2,
• black from 22.3.0 to 22.10.0 and
• flake8 from 4.0.1 to 5.0.4. Also freeze flake8 dependencies.

Also change flake8's repo config to github (the gitlab mirror being outdated).

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Migrated from D8736 (view on Phabricator)