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When Merlin finds project-wide occurrences, it loads lists of occurrences from index files. Those index files contain metadata about the state of the ml/mli files when the index was generated. This is used as a heuristic to determine if occurrences might be stale (ie, that occurrence was either moved or removed since the index file was generated).
This PR does two things:
The net effect for an end user should be nothing - the stale occurrences should still be reported by their editor. But this enables future LSP/editor work.