Support for Numpy 2.0

[fra-pcmgf]

Numpy 2 has some breaking changes (https://numpy.org/devdocs/numpy_2_0_migration_guide.html), so GeneTrajectory-python should be updated and rebuilt to work with it.

It looks doable but we depend on packages that are not numpy 2 ready yet:

• POT https://github.com/PythonOT/POT/issues/626
• scikit-misc

[fra-pcmgf]

The current situation is

• the new version of POT works well
• scikit-misc made a new version but doesn't fully support Mac at the moment
• scanpy has pinned numpy < 2.0

Also, I noticed we should require numpy>=1.25 instead because we are using np.linalg.eigh as named tuple.

[fra-pcmgf]

Note: this package supports numpy 2.0 but scanpy doesn't yet