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Fix repair_metadata OOM on large repositories #1645

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Run time

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Job	Run time
check-changes	5s
check-commits	13s
sanity / sanity	16s
lint / lint	21s
docs / changelog	9s
docs / docs / build	1m 0s
build / build	1m 1s
test / test (lowerbounds)	14m 34s
test / test (azure)	12m 26s
test / test (s3)	12m 35s
test / test (pulp)	11m 52s
deprecations	3s
ready-to-ship	3s
	54m 38s