chore: run pre-commit on all files

[aaron-ang]

Excluded test fixtures.

[github-actions]

GNU testsuite comparison:

Skip an intermittent issue tests/timeout/timeout (fails in this run but passes in the 'main' branch)

[ChrisDryden]

Most of the examples in the PR are there on purpose such as the whitespace files for integration tests

[github-actions]

GNU testsuite comparison:

Skipping an intermittent issue tests/tty/tty-eof (passes in this run but fails in the 'main' branch)

[ChrisDryden]

How does it work with the patches files, since they have to match what existed before don't they have to keep all formatting issues? Might be a good idea to exclude all of those ones too

[aaron-ang]

How does it work with the patches files, since they have to match what existed before don't they have to keep all formatting issues? Might be a good idea to exclude all of those ones too

The formatting removed trailing whitespace in existing blank lines in patch files, so it shouldn't affect testing (CI also passes).

The localization CI error seems unrelated.