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- Prover-Integrated Orchestration Layers (L0-L3): Goedel-Prover-V2 watchdog, BFS-Prover-V2 swarm consensus, bf4prover topology adaptation - FAMM Verilator benchmark: uniform vs preshaped delay comparison (4.4x speedup) - Swarm topological device prober: 11 agents probing traces, caps, delays, errors, vias, PDN - Spec sheet puller: 10 components with key params and topological relevance - Virtual FPGA system tests: 6/6 passed, 134K ops/s throughput - Fixed merge conflicts in AI-Newton test_experiment.ipynb
63 lines
2.4 KiB
Text
63 lines
2.4 KiB
Text
import Mathlib.Data.Real.Basic
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import Mathlib.Data.List.Basic
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import Semantics.PeptideMoE
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noncomputable section
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namespace PeptideMoEExamples
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open PeptideMoE
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noncomputable def tp : ThermoParams :=
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{ kB := 1.0, temperature := 1.0 }
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noncomputable def ap : AdmissibilityParams :=
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{ stericMax := 5.0, bondMax := 5.0, phiMin := -3.14159, phiMax := 3.14159,
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psiMin := -3.14159, psiMax := 3.14159, c0 := 8.0 }
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noncomputable def helixState : PeptideState :=
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{ phi := -1.0, psi := -0.7, internalEnergy := 1.2, conformationalEntropy := 0.9,
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structuralCoherence := 2.8, stericEnergy := 0.6, bondEnergy := 0.8 }
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noncomputable def sheetState : PeptideState :=
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{ phi := -2.2, psi := 2.2, internalEnergy := 1.5, conformationalEntropy := 1.0,
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structuralCoherence := 2.5, stericEnergy := 0.8, bondEnergy := 0.9 }
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noncomputable def clashState : PeptideState :=
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{ phi := 0.4, psi := 0.4, internalEnergy := 2.0, conformationalEntropy := 1.6,
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structuralCoherence := 3.0, stericEnergy := 9.0, bondEnergy := 0.7 }
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noncomputable def helixExpert : Expert :=
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{ name := "helix", gate := fun P => if P.phi < -0.5 then 0.6 else 0.2,
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advicePhi := fun P => - (P.phi + 1.0), advicePsi := fun P => - (P.psi + 0.7) }
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noncomputable def sheetExpert : Expert :=
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{ name := "sheet", gate := fun P => if P.psi > 1.0 then 0.6 else 0.2,
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advicePhi := fun P => - (P.phi + 2.2), advicePsi := fun P => - (P.psi - 2.2) }
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noncomputable def loopExpert : Expert :=
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{ name := "loop", gate := fun _ => 0.2,
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advicePhi := fun P => - P.phi / 2, advicePsi := fun P => - P.psi / 2 }
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noncomputable def experts : List Expert := [helixExpert, sheetExpert, loopExpert]
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noncomputable def candidates : List Candidate :=
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[ { state := helixState, label := "helix" }
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, { state := sheetState, label := "sheet" }
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, { state := clashState, label := "clash" } ]
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noncomputable def gradPhiToy : PeptideState → ℝ := fun P => P.phi
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noncomputable def gradPsiToy : PeptideState → ℝ := fun P => P.psi
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noncomputable def helixUsefulnessOnHelix : ℝ :=
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expertUsefulness gradPhiToy gradPsiToy helixExpert helixState
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noncomputable def sheetUsefulnessOnHelix : ℝ :=
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expertUsefulness gradPhiToy gradPsiToy sheetExpert helixState
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noncomputable def report : List (String × ℝ × ℝ × ℝ) :=
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candidateReport tp ap candidates
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noncomputable def best : Option Candidate :=
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bestCandidate? tp ap candidates
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end PeptideMoEExamples
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