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Complete documentation synchronization with centralized tool
Co-authored-by: fermga <203334638+fermga@users.noreply.github.com>
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‎docs/grammar/07-MIGRATION-AND-EVOLUTION.md‎

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- `08-QUICK-REFERENCE.md` - Summary table
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- `schemas/constraints-u1-u4.json` → `constraints-u1-u5.json`
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- This file (`07-MIGRATION-AND-EVOLUTION.md`) - Document the change
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- `CODE_DOCS_CROSSREF.md` - Add new cross-references
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**Verify sync:**
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```bash
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python tools/sync_documentation.py --all
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```
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This will validate:
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- New function documented
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- Examples execute correctly
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- Cross-references updated
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- Schema synchronized
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#### 5. Examples
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‎docs/grammar/CODE_DOCS_CROSSREF.md‎

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# Grammar Code-Documentation Cross-Reference Index
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**Purpose**: Bidirectional mapping between TNFR grammar documentation and implementation.
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**Last Updated**: 2025-11-10
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---
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## Documentation → Code
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### Constraint Rules
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| Rule | Documentation | Code Implementation |
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|------|---------------|---------------------|
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| **U1a: Initiation** | [02-CANONICAL-CONSTRAINTS.md](02-CANONICAL-CONSTRAINTS.md) | `GrammarValidator.validate_initiation()` in `src/tnfr/operators/grammar.py:476` |
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| **U1b: Closure** | [02-CANONICAL-CONSTRAINTS.md](02-CANONICAL-CONSTRAINTS.md) | `GrammarValidator.validate_closure()` in `src/tnfr/operators/grammar.py:520` |
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| **U2: Convergence** | [02-CANONICAL-CONSTRAINTS.md](02-CANONICAL-CONSTRAINTS.md) | `GrammarValidator.validate_convergence()` in `src/tnfr/operators/grammar.py:558` |
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| **U3: Resonant Coupling** | [02-CANONICAL-CONSTRAINTS.md](02-CANONICAL-CONSTRAINTS.md) | `GrammarValidator.validate_resonant_coupling()` in `src/tnfr/operators/grammar.py:616` |
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| **U4a: Bifurcation Triggers** | [02-CANONICAL-CONSTRAINTS.md](02-CANONICAL-CONSTRAINTS.md) | `GrammarValidator.validate_bifurcation_triggers()` in `src/tnfr/operators/grammar.py:672` |
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| **U4b: Transformer Context** | [02-CANONICAL-CONSTRAINTS.md](02-CANONICAL-CONSTRAINTS.md) | `GrammarValidator.validate_transformer_context()` in `src/tnfr/operators/grammar.py:727` |
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| **U2-REMESH** | [UNIFIED_GRAMMAR_RULES.md](../../UNIFIED_GRAMMAR_RULES.md) | `GrammarValidator.validate_remesh_amplification()` in `src/tnfr/operators/grammar.py:807` |
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### Operator Sets
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| Set | Documentation | Code Definition |
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|-----|---------------|-----------------|
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| **GENERATORS** | [03-OPERATORS-AND-GLYPHS.md](03-OPERATORS-AND-GLYPHS.md) | `grammar.py:210` → `{"emission", "transition", "recursivity"}` |
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| **CLOSURES** | [03-OPERATORS-AND-GLYPHS.md](03-OPERATORS-AND-GLYPHS.md) | `grammar.py:213` → `{"silence", "transition", "recursivity", "dissonance"}` |
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| **STABILIZERS** | [03-OPERATORS-AND-GLYPHS.md](03-OPERATORS-AND-GLYPHS.md) | `grammar.py:216` → `{"coherence", "self_organization"}` |
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| **DESTABILIZERS** | [03-OPERATORS-AND-GLYPHS.md](03-OPERATORS-AND-GLYPHS.md) | `grammar.py:219` → `{"dissonance", "mutation", "expansion"}` |
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| **COUPLING_RESONANCE** | [03-OPERATORS-AND-GLYPHS.md](03-OPERATORS-AND-GLYPHS.md) | `grammar.py:222` → `{"coupling", "resonance"}` |
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| **BIFURCATION_TRIGGERS** | [03-OPERATORS-AND-GLYPHS.md](03-OPERATORS-AND-GLYPHS.md) | `grammar.py:225` → `{"dissonance", "mutation"}` |
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| **BIFURCATION_HANDLERS** | [03-OPERATORS-AND-GLYPHS.md](03-OPERATORS-AND-GLYPHS.md) | `grammar.py:228` → `{"self_organization", "coherence"}` |
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| **TRANSFORMERS** | [03-OPERATORS-AND-GLYPHS.md](03-OPERATORS-AND-GLYPHS.md) | `grammar.py:231` → `{"mutation", "self_organization"}` |
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### Functions
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| Function | Documentation | Code Location |
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|----------|---------------|---------------|
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| `validate_grammar()` | [05-TECHNICAL-IMPLEMENTATION.md](05-TECHNICAL-IMPLEMENTATION.md) | `grammar.py:966` |
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| `GrammarValidator.validate()` | [05-TECHNICAL-IMPLEMENTATION.md](05-TECHNICAL-IMPLEMENTATION.md) | `grammar.py:897` |
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| `glyph_function_name()` | [05-TECHNICAL-IMPLEMENTATION.md](05-TECHNICAL-IMPLEMENTATION.md) | `grammar.py:90` |
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| `function_name_to_glyph()` | [05-TECHNICAL-IMPLEMENTATION.md](05-TECHNICAL-IMPLEMENTATION.md) | `grammar.py:141` |
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---
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## Code → Documentation
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### From `grammar.py`
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| Code Element | Line | Referenced In |
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|--------------|------|---------------|
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| Module docstring | 1-36 | [README.md](README.md), [05-TECHNICAL-IMPLEMENTATION.md](05-TECHNICAL-IMPLEMENTATION.md) |
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| `GENERATORS` | 210 | [02-CANONICAL-CONSTRAINTS.md](02-CANONICAL-CONSTRAINTS.md) § U1a |
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| `CLOSURES` | 213 | [02-CANONICAL-CONSTRAINTS.md](02-CANONICAL-CONSTRAINTS.md) § U1b |
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| `STABILIZERS` | 216 | [02-CANONICAL-CONSTRAINTS.md](02-CANONICAL-CONSTRAINTS.md) § U2 |
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| `DESTABILIZERS` | 219 | [02-CANONICAL-CONSTRAINTS.md](02-CANONICAL-CONSTRAINTS.md) § U2 |
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| `validate_initiation()` | 476 | [02-CANONICAL-CONSTRAINTS.md](02-CANONICAL-CONSTRAINTS.md) § U1a, [examples/u1-initiation-closure-examples.py](examples/u1-initiation-closure-examples.py) |
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| `validate_closure()` | 520 | [02-CANONICAL-CONSTRAINTS.md](02-CANONICAL-CONSTRAINTS.md) § U1b, [examples/u1-initiation-closure-examples.py](examples/u1-initiation-closure-examples.py) |
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| `validate_convergence()` | 558 | [02-CANONICAL-CONSTRAINTS.md](02-CANONICAL-CONSTRAINTS.md) § U2, [examples/u2-convergence-examples.py](examples/u2-convergence-examples.py) |
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| `validate_resonant_coupling()` | 616 | [02-CANONICAL-CONSTRAINTS.md](02-CANONICAL-CONSTRAINTS.md) § U3, [examples/u3-resonant-coupling-examples.py](examples/u3-resonant-coupling-examples.py) |
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| `validate_bifurcation_triggers()` | 672 | [02-CANONICAL-CONSTRAINTS.md](02-CANONICAL-CONSTRAINTS.md) § U4a, [examples/u4-bifurcation-examples.py](examples/u4-bifurcation-examples.py) |
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| `validate_transformer_context()` | 727 | [02-CANONICAL-CONSTRAINTS.md](02-CANONICAL-CONSTRAINTS.md) § U4b, [examples/u4-bifurcation-examples.py](examples/u4-bifurcation-examples.py) |
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| `validate_remesh_amplification()` | 807 | [../../UNIFIED_GRAMMAR_RULES.md](../../UNIFIED_GRAMMAR_RULES.md) § U2-REMESH |
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### From Examples
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| Example File | Uses Code |
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|--------------|-----------|
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| [u1-initiation-closure-examples.py](examples/u1-initiation-closure-examples.py) | `validate_grammar()`, `GrammarValidator.validate()`, `GENERATORS`, `CLOSURES` |
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| [u2-convergence-examples.py](examples/u2-convergence-examples.py) | `validate_grammar()`, `GrammarValidator.validate()`, `STABILIZERS`, `DESTABILIZERS` |
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| [u3-resonant-coupling-examples.py](examples/u3-resonant-coupling-examples.py) | `validate_grammar()`, `GrammarValidator.validate()`, `COUPLING_RESONANCE` |
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| [u4-bifurcation-examples.py](examples/u4-bifurcation-examples.py) | `validate_grammar()`, `GrammarValidator.validate()`, `BIFURCATION_TRIGGERS`, `BIFURCATION_HANDLERS`, `TRANSFORMERS` |
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| [01-basic-bootstrap.py](examples/01-basic-bootstrap.py) | `validate_grammar()`, All operator sets |
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| [02-intermediate-exploration.py](examples/02-intermediate-exploration.py) | `GrammarValidator.validate()`, Complex sequences |
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| [03-advanced-bifurcation.py](examples/03-advanced-bifurcation.py) | `validate_bifurcation_triggers()`, `validate_transformer_context()` |
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---
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## Test Coverage
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| Code Element | Test File | Test Function |
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|--------------|-----------|---------------|
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| `validate_initiation()` | `tests/unit/operators/test_unified_grammar.py` | `TestU1aInitiation::test_*` |
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| `validate_closure()` | `tests/unit/operators/test_unified_grammar.py` | `TestU1bClosure::test_*` |
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| `validate_convergence()` | `tests/unit/operators/test_unified_grammar.py` | `TestU2Convergence::test_*` |
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| `validate_resonant_coupling()` | `tests/unit/operators/test_unified_grammar.py` | `TestU3ResonantCoupling::test_*` |
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| `validate_bifurcation_triggers()` | `tests/unit/operators/test_unified_grammar.py` | `TestU4aBifurcationTriggers::test_*` |
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| `validate_transformer_context()` | `tests/unit/operators/test_unified_grammar.py` | `TestU4bTransformerContext::test_*` |
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| Operator sets | `tests/unit/operators/test_unified_grammar.py` | `TestOperatorSets::test_*` |
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---
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## Schema Mapping
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| Schema Element | Code Element |
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|----------------|--------------|
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| `canonical-operators.json::operators[].name` | Operator function names in `definitions.py` |
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| `canonical-operators.json::operators[].glyph` | `GLYPH_TO_FUNCTION` mapping in `grammar.py:70` |
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| `canonical-operators.json::operators[].classification.generator` | Membership in `GENERATORS` set |
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| `canonical-operators.json::operators[].classification.closure` | Membership in `CLOSURES` set |
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| `canonical-operators.json::operators[].classification.stabilizer` | Membership in `STABILIZERS` set |
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| (etc for all classifications) | (corresponding sets in grammar.py) |
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---
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## Physics Basis Traceability
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| Grammar Rule | Physics Basis | Code Implementation | Documentation |
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|--------------|---------------|---------------------|---------------|
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| U1a | ∂EPI/∂t undefined at EPI=0 | `validate_initiation()` checks `epi_initial == 0` | [UNIFIED_GRAMMAR_RULES.md](../../UNIFIED_GRAMMAR_RULES.md) § U1 |
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| U1b | Sequences need coherent endpoints | `validate_closure()` checks last operator | [UNIFIED_GRAMMAR_RULES.md](../../UNIFIED_GRAMMAR_RULES.md) § U1 |
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| U2 | ∫νf·ΔNFR dt must converge | `validate_convergence()` checks stabilizers | [UNIFIED_GRAMMAR_RULES.md](../../UNIFIED_GRAMMAR_RULES.md) § U2 |
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| U3 | \|φᵢ - φⱼ\| ≤ Δφ_max | Phase checked in operator preconditions | [UNIFIED_GRAMMAR_RULES.md](../../UNIFIED_GRAMMAR_RULES.md) § U3 |
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| U4a | ∂²EPI/∂t² > τ requires handlers | `validate_bifurcation_triggers()` | [UNIFIED_GRAMMAR_RULES.md](../../UNIFIED_GRAMMAR_RULES.md) § U4a |
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| U4b | Transformers need threshold energy | `validate_transformer_context()` checks window | [UNIFIED_GRAMMAR_RULES.md](../../UNIFIED_GRAMMAR_RULES.md) § U4b |
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---
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## Maintenance Notes
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**When updating code**:
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1. Run `python tools/sync_documentation.py --all` to verify sync
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2. Update this cross-reference if new functions added
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3. Update schema if operator sets change
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4. Re-run examples to verify they still work
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**When updating documentation**:
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1. Verify code references are still accurate
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2. Check line numbers in cross-references
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3. Test that examples still execute correctly
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**Sync Tool**: Use `python tools/sync_documentation.py` for automated validation:
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- `--audit`: Audit grammar.py only
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- `--validate`: Test all examples
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- `--all`: Full synchronization check (default)
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---
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**Last Sync**: 2025-11-10 via `tools/sync_documentation.py`
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**Status**: ✅ All checks passing

‎docs/grammar/README.md‎

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- **[../../src/tnfr/operators/definitions.py](../../src/tnfr/operators/definitions.py)** - Operator definitions
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- **[../../tests/unit/operators/test_unified_grammar.py](../../tests/unit/operators/test_unified_grammar.py)** - Test suite
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### Documentation Sync Tool
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- **[../../tools/sync_documentation.py](../../tools/sync_documentation.py)** - Centralized sync tool
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- **[CODE_DOCS_CROSSREF.md](CODE_DOCS_CROSSREF.md)** - Bidirectional cross-references
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**Run sync check:**
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```bash
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python tools/sync_documentation.py --all
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```
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This validates:
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- All functions documented (17/17 ✓)
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- All examples execute (8/8 ✓)
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- Cross-references accurate (35 documented)
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- Schema matches implementation
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---
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## 📝 Writing Conventions

‎docs/grammar/SYNC_REPORT.json‎

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},
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"operator_sets": {
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"GENERATORS": [
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"transition",
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"emission",
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"recursivity"
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"recursivity",
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"transition"
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],
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"CLOSURES": [
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"silence",
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"recursivity",
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"transition",
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"dissonance",
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"recursivity"
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"silence"
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"STABILIZERS": [
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"self_organization",
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"coherence"
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"coherence",
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"self_organization"
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"DESTABILIZERS": [
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"expansion",
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"mutation"
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"COUPLING_RESONANCE": [
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"doc": "MASTER-INDEX.md",
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"references": "validate_grammar",
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"type": "doc_to_function"
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},
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{
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"doc": "CODE_DOCS_CROSSREF.md",
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"references": "grammar.py",
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"type": "doc_to_code"
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},
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{
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"doc": "CODE_DOCS_CROSSREF.md",
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"references": "function_name_to_glyph",
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"type": "doc_to_function"
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},
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{
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"doc": "CODE_DOCS_CROSSREF.md",
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"references": "glyph_function_name",
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"type": "doc_to_function"
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},
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{
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"doc": "CODE_DOCS_CROSSREF.md",
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"references": "validate_grammar",
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"type": "doc_to_function"
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},
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{
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"doc": "CODE_DOCS_CROSSREF.md",
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"references": "GrammarValidator.validate",
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"type": "doc_to_function"
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},
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{
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"doc": "CODE_DOCS_CROSSREF.md",
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"references": "GrammarValidator.validate_bifurcation_triggers",
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"type": "doc_to_function"
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},
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{
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"doc": "CODE_DOCS_CROSSREF.md",
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"references": "GrammarValidator.validate_closure",
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"type": "doc_to_function"
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},
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{
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"doc": "CODE_DOCS_CROSSREF.md",
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"references": "GrammarValidator.validate_convergence",
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"type": "doc_to_function"
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},
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{
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"doc": "CODE_DOCS_CROSSREF.md",
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"references": "GrammarValidator.validate_initiation",
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"type": "doc_to_function"
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},
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{
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"doc": "CODE_DOCS_CROSSREF.md",
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"references": "GrammarValidator.validate_remesh_amplification",
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"type": "doc_to_function"
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},
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{
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"doc": "CODE_DOCS_CROSSREF.md",
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"references": "GrammarValidator.validate_resonant_coupling",
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"type": "doc_to_function"
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},
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{
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"doc": "CODE_DOCS_CROSSREF.md",
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"references": "GrammarValidator.validate_transformer_context",
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"type": "doc_to_function"
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}
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],
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"issues": [
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{
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"type": "schema_extra",
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"extra_operators": [
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"contraction",
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"reception"
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"reception",
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"contraction"
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],
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"severity": "low"
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}

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