[Tcode-Motion]

🎯 What: Restored tools/scripts/update_graphify.py and tools/scripts/check_graphify.py and refactored the overly long main function in tools/scripts/update_graphify.py by extracting distinct phases into dedicated helper functions (verify_environment, run_extraction, validate_outputs).
💡 Why: Improves readability, maintainability, and testability of the Graphify update script by breaking down a 145-line main function into modular components.
✅ Verification: Verified Python compilation with python3 -m py_compile tools/scripts/update_graphify.py, inspected git diff, and ran cargo test --workspace --all-targets.
✨ Result: Reduced main() to a clean ~20-line orchestration function while preserving all original behavior.

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PR created automatically by Jules for task 15741315096277089510 started by @Tcode-Motion

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