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repository: Marry `OptimizeRepository` and housekeeping

Patrick Steinhardt requested to merge pks-repository-optimize-housekeeping into master

This MR marries both the OptimizeRepository() RPC and the housekeeping tasks such that both profit: OptimizeRepository() learns to do housekeeping tasks, and the housekeeping tasks get extended such that they know to clean up stale configuration and prune empty ref directories.

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