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Bump tolerance for skeletonization test #1661

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Run time

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Job	Run time
Pylint	3m 14s
Documentation	2m 39s
Examples	11m 57s
Mypy	2m 37s
Pytest Linux	46m 6s
Pytest Mac	25m 50s
Pytest with SymEngine	46m 29s
Ruff	10s
Typos	6s
	2h 19m 8s