py-why
use of deprecated `np.mat`
Numpy 2.0 was released less than a month ago, resulting in some deprecated code in causal-learn. For example, see Line 42 of causal-learn/utils/ScoreUtils.py which uses the deprecated np.mat. This should be a quick fix, so I'll try to make a (backwards-compatible) pull request in the next week or so, unless someone else gets to it first.
It could also be worth considering adding compatible release version specifiers in setup.py to ensure automatically installed requirements are compatible with versions that devs have used in tests.
Aha, thank you so much for the reminder and your proposal to address it. The recent PR for GRaSP and BOSS (#188) removed some 'np.mat' in the local score functions, but there are likely still instances elsewhere. Please feel free to submit a PR, and let us know if you have any questions.
I went through and removed every instance of np.mat, specifying the dimensions of the arrays and updating the surrounding code as needed. All of the tests are passing now except for test_local_score_general in TestLocalScore.py. I've done what I can, and hope it helps, but I think it still needs someone else to carefully go through LocalScoreFunction.py to fix the last failing test and address some related runtime warnings.