Reenable tests that edit file permissions

In GitHub Actions the permissions seem to work differently to how it works in Azure CI. In both cases, we run the test suite as root. But in GHA runners, the file permission changes won't have any effects because the test started as a root user have permissions to adapt the files in any case.

This issue is about enabling the tests again by rewriting the tests (ideally, because we shouldn't rely on OS features in the tests). Alternatively, we find a way to make those tests work in GHA as well.