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<h1>Crystal–Mycelial Engine (CME)</h1>
<p class="tagline">RTT / CMH / MSRM — Biological → Hybrid → Mineral substrate transition pipeline.</p>
</header>
<main>
<section aria-labelledby="overview-heading">
<h2 id="overview-heading">Module Overview</h2>
<p>
The Crystal–Mycelial Engine (CME) describes the substrate transition pipeline used in RTT/CMH/MSRM:
biological geometry is captured, resonance‑aligned in a hybrid layer, and locked into mineral lattice logic.
</p>
<p>
CME is organized into three regimes:
<strong>BGR</strong> (Biological Growth), <strong>HRR</strong> (Hybrid Resonance), and
<strong>MLR</strong> (Mineral Lock‑In).
</p>
</section>
<section aria-labelledby="regimes-heading">
<h2 id="regimes-heading">Regime Structure</h2>
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<div class="card">
<h3>BGR — Biological Growth Regime</h3>
<p>Biological expansion, routing geometry, moisture‑driven growth, nutrient gradients.</p>
<ul>
<li>Envelope: moisture 0.55–0.65</li>
<li>Operators: P, E, G, M</li>
<li>Key substrate: biological channels</li>
</ul>
</div>
<div class="card">
<h3>HRR — Hybrid Resonance Regime</h3>
<p>Mineral precursor infiltration, resonance alignment, hybrid memory transfer.</p>
<ul>
<li>Envelope: ion saturation 0.65–0.75</li>
<li>Operators: S, HybridOps, E, G</li>
<li>Key substrate: hybrid aligned layer</li>
</ul>
</div>
<div class="card">
<h3>MLR — Mineral Lock‑In Regime</h3>
<p>Crystal lattice propagation, domain formation, impurity‑band memory.</p>
<ul>
<li>Envelope: supersaturation ≥ 0.85</li>
<li>Operators: P, M, E, S</li>
<li>Key substrate: mineral lattice domains</li>
</ul>
</div>
</div>
</section>
<section aria-labelledby="navigation-heading">
<h2 id="navigation-heading">Module Navigation</h2>
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<h3>Core Documentation</h3>
<ul>
<li><a href="./docs/cmh_regimes_overview.md">CMH Regimes Overview</a></li>
<li><a href="./docs/bgr_regime.md">BGR Regime</a></li>
<li><a href="./docs/hrr_regime.md">HRR Regime</a></li>
<li><a href="./docs/mlr_regime.md">MLR Regime</a></li>
<li><a href="./docs/operator_mapping.md">Operator Mapping</a></li>
<li><a href="./docs/envelopes_reference.md">Envelope Reference</a></li>
<li><a href="./docs/glossary.md">Glossary</a></li>
</ul>
</div>
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<h3>Teaching Materials</h3>
<ul>
<li><a href="./teaching/handout_full.pdf.txt">Full Teaching Handout (PDF master)</a></li>
<li><a href="./teaching/ascii_diagram.txt">CME Teaching ASCII Diagram</a></li>
<li><a href="./teaching/cheat_sheet.txt">CME Cheat Sheet</a></li>
<li><a href="./teaching/exercises/exercise_01_bgr.md">Exercise 01 — BGR</a></li>
<li><a href="./teaching/exercises/exercise_02_hrr.md">Exercise 02 — HRR</a></li>
<li><a href="./teaching/exercises/exercise_03_mlr.md">Exercise 03 — MLR</a></li>
<li><a href="./teaching/exercises/exercise_04_operator_mapping.md">Exercise 04 — Operator Mapping</a></li>
<li><a href="./teaching/exercises/exercise_05_regime_flow.md">Exercise 05 — Regime Flow</a></li>
</ul>
</div>
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<h3>Agents & Simulation</h3>
<ul>
<li><a href="./teaching/agents/agent_lab.md">CME Agent Lab</a></li>
<li><a href="./teaching/agents/agents.py"><code>agents.py</code> — Teaching Agents</a></li>
<li><a href="./visuals/regime_flow_ascii.txt">Regime Flow ASCII Visual</a></li>
<li><a href="./visuals/regime_flow_tfstyle.svg.txt">Regime Flow SVG (TF style)</a></li>
<li><a href="./visuals/substrate_layers_diagram.txt">Substrate Layers Diagram</a></li>
</ul>
</div>
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<h3>Metadata & Validation</h3>
<ul>
<li><a href="./metadata/sitemap_entry.xml">Sitemap Entry</a></li>
<li><a href="./metadata/head_block.html">Head Block</a></li>
<li><a href="./metadata/session_context.html">Session Context</a></li>
<li><a href="./metadata/sidebar_audit.html">Sidebar Audit</a></li>
<li><a href="./metadata/diff_table_metadata.html">Diff Table (Metadata)</a></li>
<li><a href="./metadata/diff_table_modulejson.html">Diff Table (module.json)</a></li>
<li><a href="./metadata/validator_report.txt">Validator Report</a></li>
</ul>
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</section>
<section aria-labelledby="technical-heading">
<h2 id="technical-heading">Technical Summary</h2>
<p>
CME integrates RTT operator grammar with CMH regime structure and MSRM envelope cycles.
Substrate transitions are controlled via propagation, energy, gradient, memory, and substrate operators,
with hybrid‑layer operators mediating the biological → mineral bridge.
</p>
<p>
The teaching and agent materials in this module are designed to make CME implementable as
a multi‑agent simulation pipeline, while preserving canon‑aligned regime and envelope semantics.
</p>
</section>
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<p>Crystal–Mycelial Engine (CME) — TriadicFrameworks / RTT / CMH / MSRM.</p>
<p>Module is canonical, internally consistent, and ready for publication.</p>
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