lingyuzeng/macrolactone-toolkit
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Author SHA1 Message Date
lingyuzeng
3e07402f4e feat(numbering): publish canonical numbering API 
Add a public numbering module and route fragmenting, validation,
and scaffold preparation through the canonical numbering entry.

Rewrite the repository entry docs around the fixed numbering
contract, add MkDocs landing pages, and document the mirror
mapping used for medicinal-chemistry comparisons.

Also refresh the validation analysis reports to explain the
canonical-versus-mirrored numbering relationship.
 2026-03-20 15:14:31 +08:00
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
hotwa
0ced0fa816 Add AGENTS.md and ring numbering test 
- Add AGENTS.md with AI assistant guidelines for the project
- Add tests/test_ring_numbering.py to verify ring numbering consistency
- Test confirms atom numbering is fixed and reproducible

Co-Authored-By: Claude <noreply@anthropic.com>
 2026-01-23 09:53:27 +08:00