feat: add PARTIAL exit code (6) for clone with corrupt objects

- ExitCode.PARTIAL (6) added to muse/core/errors.py — documents the completed-with-skips contract distinct from INTERNAL_ERROR (3) - clone: count skipped objects in _on_object; raise SystemExit(PARTIAL) when any are skipped - _restore_working_tree: catch RuntimeError from apply_manifest when objects are missing (partial clone leaves some objects unwritten) - _CloneJson: add skipped_objects field to JSON envelope - tests/test_clone_partial.py: TDD — 3 tests covering exit code, object write correctness, and JSON skipped_objects count

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