Analyze codebase and plan refactoring #168
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Major documentation updates after deep codebase review: CLAUDE.md Updates: - Fixed directory structure (models/arch/ not architectures/) - Added all 8 architectures (MONAI: 4, MedNeXt: 2, RSUNet: 2) - Corrected import paths throughout - Removed references to non-existent .claude/ directory - Updated tutorial list (11 configs, not 3) - Added Code Quality Status section with metrics - Added test status (62% unit, 0% integration) - Listed all 109 Python files, ~23K lines of code - Updated Further Reading with all documentation files REFACTORING_PLAN.md (NEW): - Comprehensive 400+ line refactoring plan - Identified 3 critical issues (P1) - Identified 6 high-value improvements (P2) - Identified 5 code quality enhancements (P3) - 4 code cleanup tasks - Complete test improvement plan - Performance optimization opportunities - 4-phase implementation roadmap (28-40 hours) - Risk assessment and mitigation strategies Key Findings: - Overall codebase health: 8.1/10 (Production Ready) - 95%+ migration complete (YACS → Hydra) - Modern architecture (Lightning + MONAI + Hydra) - Main issues: lit_model.py size (1.8K lines), code duplication, integration tests need v2.0 API update - 3 legacy YACS configs in configs/barcode/ (archive candidates) - NotImplementedError in data/dataset/build.py needs implementation Codebase is production-ready with minor refactoring recommended for improved maintainability.
This document was generated during the comprehensive codebase review and contains detailed analysis of the data pipeline: - Dataset implementations (Volume, Tile, Filename, Multi) - Augmentation system (1449 lines of MONAI transforms) - Transform builders (791 lines with train/val/test pipelines) - I/O utilities (452 lines, multi-format support) - Configuration system - Code quality assessment (7.5/10) - Identified issues and recommendations Key findings: - 9,373 lines total in data module - Well-structured with MONAI-first approach - 3 high-priority issues (NotImplementedError, import cycle, dummy dataset) - 6 medium-priority improvements (code duplication, hardcoded values) - Overall production-ready with minor refactoring recommended This complements the main REFACTORING_PLAN.md document.
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