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This is exactly why I avoid pip et al whenever I can and just use Nix.

Do you know of any up to date blogs/howtos/guides on nix+python where the python project contains modules that need to be compiled (eg Cython, pybind, etc)? I've found the basic info at https://nixos.wiki/wiki/Packaging/Python but it doesn't really go in depth for more complex use cases than having a setup.py...

Have you checked out the manual?

https://nixos.org/manual/nixpkgs/stable/#python

Particularly section 17.27.1.2. Developing with Python. Combine that with a generic guide on using Flakes and that should get you started

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