ImageD11_pytest

Minor notebook bugfixes, tiny changes to refinement manager logic #434

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Run time

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Job	Run time
build (2.7)	2m 41s
build (3.8)	3m 9s
build (3.9)	3m 17s
build (3.10)	3m 13s
build (3.11)	3m 5s
build (3.12)	3m 27s
	18m 52s