Cross references

claude.md

@@ -77,7 +77,9 @@ MastersThesis/
 │   ├── instrucciones.pdf         # TFE writing guidelines
 │   ├── plantilla_individual.pdf  # Word template (PDF version)
 │   └── plantilla_individual.htm  # Word template (HTML version, source)
-├── apply_content.py         # Generates TFM document from docs/ + template
+├── apply_content.py         # Main orchestrator: generates TFM from docs/ + template
+├── content_handlers.py      # Content block handlers (tables, figures, lists, etc.)
+├── markdown_utils.py        # Markdown utilities (cross-refs, latex, metadata extraction)
 ├── generate_mermaid_figures.py  # Converts Mermaid diagrams to PNG
 ├── src/archived/ocr_benchmark_notebook.ipynb  # Archived benchmark (do not cite)
 └── README.md
@@ -162,6 +164,13 @@ python3 apply_content.py
 ```
 
 **What `apply_content.py` does:**
+
+The script is organized into three modules for maintainability:
+- `apply_content.py` - Main orchestrator (~300 lines)
+- `content_handlers.py` - Block-level content handlers (~400 lines)
+- `markdown_utils.py` - Utility functions (~150 lines)
+
+Functionality:
 - Replaces Resumen and Abstract with actual content + keywords
 - Replaces all 5 chapters with content from docs/
 - Replaces Referencias with APA-formatted bibliography