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Use the branch selected by the caller. Clean up the temporary checkout after a failed clone and keep the tool list usable when its source directory is absent. Handle trailing separators on a source tool directory and remove an incomplete copy so retrying succeeds without overwriting an existing installation.
Five filesystem tests failed on the base and pass with these changes, including cloning an actual local Git branch and retrying an interrupted copy. Run
python -m unittest discover -s atomic-assembler/testswith atomic-assembler on PYTHONPATH.