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Fix some more deprecations from primitives #1641

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Run time

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Job	Run time
Ruff	4s
Mypy	2m 45s
Examples	11m 33s
Documentation	2m 31s
Pylint	3m 5s
Pytest Linux	45m 3s
Pytest Mac	24m 7s
Pytest with SymEngine	46m 18s
Typos	3s
	2h 15m 29s