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Calibre automatically creates a backup of your metadata for each book, but doesn't back up the book file(s). However, the metadata backup resides in the same directory the book files do, so it only protects against failures of the central library database (metadata.db). If you want to back up the Calibre library, I recommend backing up the whole folder as a single entity, as the metadata.db file and the folder structure are codependent- it doesn't make any sense to have a backup of the metadata.db at one time and the folder stucture at another time.
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