Files
macrolactone-toolkit/.gitignore
hotwa a768d26e47 Move project docs to docs/project-docs and update references
- Move AGENTS.md, CLEANUP_SUMMARY.md, DOCUMENTATION_GUIDE.md,
  IMPLEMENTATION_SUMMARY.md, QUICK_COMMANDS.md to docs/project-docs/
- Update AGENTS.md to include splicing module documentation
- Update mkdocs.yml navigation to include project-docs section
- Update .gitignore to track docs/ directory
- Add docs/plans/ splicing design documents

Co-Authored-By: Claude Opus 4.6 <noreply@anthropic.com>
2026-03-18 17:56:03 +08:00

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# Pixi
.pixi/
pixi.lock
# Python
__pycache__/
*.py[cod]
*$py.class
*.so
.Python
build/
develop-eggs/
dist/
downloads/
eggs/
.eggs/
lib/
lib64/
parts/
sdist/
var/
wheels/
*.egg-info/
.installed.cfg
*.egg
# Jupyter Notebook
.ipynb_checkpoints
*.ipynb_checkpoints/
# Virtual environments
venv/
ENV/
env/
# IDEs
.vscode/
.idea/
*.swp
*.swo
*~
# Output files
output/fragments/macro_*/
output/*.csv
output/*.json
analysis/*.png
analysis/*.json
analysis/*.txt
# Keep directory structure
!output/.gitkeep
!analysis/.gitkeep
# OS
.DS_Store
Thumbs.db
# Temporary files
*.log
*.tmp
temp_*
archive/
data/
*.png
output/
site/
# docs/ source files should be tracked, only ignore generated site/