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Removing an empty file frees nothing, yet every `.gitkeep`, `__init__.py` and empty log formed one `report` group, and directories holding only empty files were reported as 0-byte duplicate trees. Now `report` writes no group of size 0 and `trees` writes no group whose trees hold 0 bytes. An empty file still counts toward the digest of a tree that holds other files. No option, as approved on the issue. The README's definition-of-done test now expects `empty1` and `empty2` nowhere. Model: opus-5-5