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NumPy compatibility fixes (API elements deprecated in 1.25) + Python 3.12 compatibility fixes (setuptools, etc) + upper Python version bump for CI to 3.12 #1865

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Job	Run time
julia	9m 33s
matlab	4m 13s
python (ubuntu-latest)	3m 14s
python (macos-13)	3m 44s
python (macos-14)	1m 47s
python (windows-latest)	6m 24s
	28m 55s