- Added a detailed section in the audit documentation outlining the sync system layout for both CLI syncback and two-way sync pipelines, including file mappings and processing steps.
- Updated `init.meta.json5` to include the `Rojo_Ref_PrimaryPart` attribute for better reference tracking.
- Improved the `ChangeProcessor` to populate the `RefPathIndex` from existing meta/model files at startup, ensuring accurate handling of pre-existing `Rojo_Ref_*` attributes during renames.
- Refactored the `remove_file` method in `RefPathIndex` to `remove_all_for_file`, enhancing the re-indexing process after attribute removals.
- Added tests to verify the correct behavior of the `RefPathIndex` and ensure robustness against edge cases.
These changes improve the clarity of the audit process and enhance the reliability of reference path management in the synchronization system.
