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Fix PEtab v2 extension config model #3851

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Run time

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Job	Run time
build (ubuntu-latest, 3.14)	2m 15s
build (ubuntu-latest, 3.12)	3m 58s
build (windows-latest, 3.12)	4m 20s
build (macos-latest, 3.12)	3m 8s
build (windows-latest, 3.14)	2m 40s
build (macos-latest, 3.14)	2m 22s
	18m 43s