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Add logging filters, update config namespaces #3542

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Run time

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Job	Run time
coverage (3.12)	6m 46s
format (3.12)	1m 35s
spell-check (3.12)	1m 17s
lint (3.12)	1m 36s
type-check (3.12)	1m 41s
	12m 55s