- Create document nodes from scan_result.design_documents with type="document" and group_id="cross-layer"
- Set parent field on entity nodes (capability/module/entity/runtime_component) pointing to their containing document via directory-based lookup
- Replace dead-code Step 9 with path-based resolution of downstream refs and edge deduplication
- Add helper functions _to_rel_path and _resolve_ref_path for absolute→relative path conversion and ../ resolution
Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
