docs: consolidate Rig/Cook/Run into molecular-chemistry.md (gt-8tmz.32)

- Add Work Lifecycle section (Rig → Cook → Run phases)
- Add Complete Artifact Graph showing full generation/bond relationships
- Add Two Composition Operators section (rig vs bond distinction)
- Add Formulas section covering source layer above protos
- Add symmetric Bond Table
- Update vocabulary appendix with new terms
- Redirect rig-cook-run.md to consolidated doc
- Update references in molecule-algebra.md and vision.md

🤖 Generated with [Claude Code](https://claude.com/claude-code)

Co-Authored-By: Claude Opus 4.5 <noreply@anthropic.com>

docs/molecule-algebra.md

@@ -32,7 +32,7 @@ RIG ────→ COOK ────→ RUN
 | **Cook** | Instantiate work | cook, pour, wisp | Proto, Mol, Wisp |
 | **Run** | Execute steps | (agent execution) | Work done |
 
-See [rig-cook-run.md](rig-cook-run.md) for the full specification.
+See [molecular-chemistry.md](molecular-chemistry.md) for the full specification.
 
 ## Formulas and Cooking
 
@@ -69,7 +69,7 @@ Mol/Wisp (running)          ← The work flowing
 **Rig** is source-level composition (formula YAML with `extends`, `compose`).
 **Bond** is artifact-level composition (combining cooked protos, linking mols).
 
-See the Bond Table in [rig-cook-run.md](rig-cook-run.md) for full semantics.
+See the Bond Table in [molecular-chemistry.md](molecular-chemistry.md) for full semantics.
 
 ### Why Cook?