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Cross-referenced against our prover orchestration layers: - Plan-Execute-Verify-Replan ↔ L0-L3 pipeline - Agents as specialists ↔ 11-agent swarm - Guardrails ↔ ProverWatchdog - Sandbox testing ↔ Virtual FPGA tests - Trajectory-aware eval ↔ BFS audit trail 5 gaps identified, 4 strengths confirmed
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865 B
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9 lines
865 B
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created: 20260507000000000
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modified: 20260507000000000
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tags: ResearchStack Biology Genetics Compression Codon
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title: Hachimoji Pipeline
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type: text/vnd.tiddlywiki
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! Hachimoji Pipeline
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Hachimoji (8-letter) genetic alphabet pipeline extends standard 4-letter DNA encoding to 8 nucleotides (4 natural + 4 synthetic), doubling information density per base. Lean modules: `HachimojiPipeline.lean`, `HachimojiCostRefinement.lean`, `HachimojiEquationMetaprobe.lean`. Provides cost-refined encoding and equation-level metaprobe validation. Referenced in [[Hutter Prize ISA]] as opcode 0x0E (`hachimojiEncode`) and the `HutterGeometricParameters` structure. Used by the [[Genetic Code Pipeline]] for high-density storage and the [[Synthetic Genetic Coding]] framework. The 8-letter encoding maps to geometric compression primitives (throatSurface, basePairEnergy opcodes).
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