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A file in place whose contents differ (another revision, a personal dump) was overwritten and lost. It is now moved to retrobios-backup/<date-time>/ beside the folder written to, under the same path, before the verified copy replaces it. Beside, not inside: DuckStation, SwanStation and Rustation read every file of the BIOS folder and BizHawk walks its firmware folder recursively. Identical files are never kept. --dry-run counts what would be kept, the summary and the summary event name the folder, files and bytes, and --restore FOLDER puts the files back. Data trees and standalone copies keep their replaced files the same way.