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The new pip 21.3 (released 2021-10-11) uses in-tree builds when `pip install .` is used (see [release notes](https://pip.pypa.io/en/stable/news/#v21-3) and [implementation PR](https://github.com/pypa/pip/pull/10495)). This means CodeQL will see all files twice (once in the real location that is part of this repository, and one in the copy in the `build/` dir), which trips up the analysis. When an editable install is used instead with `pip install -e .`, there is no `build/` dir, so the analysis will work again.