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JsonProvider.prune() and the checkpoint CLI joined the checkpoint location (and branch) with "*.json" or "**/*.json" and passed the result to glob.glob(), so glob characters in the path were read as a pattern. For "runs[1]", pruning deleted the checkpoints in "runs1" and kept its own, and the CLI list, info and prune commands read "runs1". Escape the directory part, so that only the file name part is a pattern.