Giorgio Gilestro
62c68d6c8c
Enter the Lamarckian society with a robust theoretical frame. The single-
locus, fixed-p* model can only express recovery toward a ceiling; the
society's load-bearing claim is vertical -- capability that EXCEEDS any
component. Generalize knowledge to a distribution over genotypes (L
biallelic loci, K=2^L, additive fitness = # correct loci), reusing all the
K-mode machinery. The one new operator is recombination: free recombination
sends p -> product of per-locus marginals (linkage equilibrium).
E8 (star, kind: society) -- the vertical claim / Fisher-Muller: decorrelated
PARENTS (specialists, expert on their loci, agnostic elsewhere) are
recombined; sexual merge assembles a genotype fitter than any parent,
climbing to the optimum (12/12, a genotype no parent had) as parent count
grows and rho->0, while the best single parent (~8.7) and the mean-mixture
"model soup" (~11.6) plateau below. Reuses make_retention_matrix (locus
mastery replaces tail-item retention).
E7 (kind: genotype_lineage) -- the advantage of sex: a single population
adapts toward the optimum; the sexual lineage adapts faster than asexual
(clonal interference) by keeping loci in linkage equilibrium (LD->0 vs LD
spike). Honest scope: a speed advantage, not a permanent Muller's-ratchet
gap (subtle to force); E8 carries the headline.
Metaphor shift (per GG): the society is sexual reproduction with UNBOUNDED
parents, not teacher->pupil. Teacher->pupil caps at the ceiling; n-parent
recombination is combinatorial and generative, and unlike biology there is
no two-parent limit. Collapse = asexual degradation; the cure = sex. This
unifies E4 (merge != average) + E6 (irreversibility) under evolution-of-sex
theory and reaches ground Riis's single-locus n-grams cannot.
New: knowledge/{genotype,genotype_lineage,society}.py, configs/layer1/{E7,
E8}.yaml, figures/plot_{E7,E8}.py, READMEs, tests/test_genotype.py (+7).
experiment.py dispatch (kind in {genotype_lineage, society}); make layer1
wired. 112 tests green.
Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>
68 lines
3.1 KiB
Python
68 lines
3.1 KiB
Python
"""E8 figure — the vertical claim: n-parent recombination exceeds any parent (Fisher–Muller).
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The society headline. Decorrelated *parents* are specialists (expert on some loci, agnostic on the
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rest); an *offspring* recombined from all of them can be fitter than any parent — capability that
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*exceeds* every component, not just recovers a ceiling. Unlike biological sex there is no two-parent
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limit, so capability climbs toward the optimum as the parent pool grows and decorrelates.
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Two panels: (A) deployed capability (mode-genotype fitness) vs parent count at ρ=0 — sexual
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recombination reaches the optimum (a genotype no parent had) while the best single parent and the
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mean-mixture "model soup" plateau below; (B) the decorrelation control — sexual capability vs parent
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count for ρ ∈ {0, 0.5, 1}: decorrelated parents (ρ=0) climb to the optimum, identical parents (ρ=1)
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buy nothing. Reads only the committed bundle.
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Usage: python figures/plot_E8.py [results/E8]
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"""
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from __future__ import annotations
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import sys
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from pathlib import Path
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import matplotlib.pyplot as plt
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import numpy as np
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sys.path.insert(0, str(Path(__file__).parent))
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from _figlib import load_bundle, mean_ci, savefig # noqa: E402
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def main(results_dir: str = "results/E8") -> None:
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df, cfg = load_bundle(results_dir)
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L = cfg["society"]["L"]
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rhos = sorted(df["rho"].unique())
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fig, axes = plt.subplots(1, 2, figsize=(13, 5))
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# Panel A: best-parent vs average vs sexual, at rho=0.
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ax = axes[0]
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d0 = df[df["rho"] == 0.0]
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for col, c, lab in [("best_parent", "#7f7f7f", "best single parent"),
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("average", "#1f77b4", "average (model soup)"),
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("sexual", "#d62728", "sexual recombination")]:
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k, m, ci = mean_ci(d0, "K_T", col)
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ax.errorbar(k, m, yerr=ci, fmt="-o", color=c, capsize=3, label=lab)
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ax.axhline(L, ls=":", color="green", lw=1, label=f"optimum ($L$={L})")
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ax.set(xlabel="number of parents $K_T$", ylabel="deployed capability (mode fitness)",
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title="Recombination exceeds any parent (ρ=0):\nsexual reaches the optimum; soup & best-parent plateau")
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ax.legend(frameon=False, fontsize=9)
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# Panel B: sexual capability vs K_T for each rho (decorrelation control).
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ax = axes[1]
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colors = plt.cm.viridis(np.linspace(0, 0.8, len(rhos)))
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for rho, c in zip(rhos, colors):
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sub = df[df["rho"] == rho]
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k, m, ci = mean_ci(sub, "K_T", "sexual")
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ax.errorbar(k, m, yerr=ci, fmt="-o", color=c, capsize=3, label=fr"ρ={rho:g}")
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ax.axhline(L, ls=":", color="green", lw=1, label=f"optimum ($L$={L})")
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ax.set(xlabel="number of parents $K_T$", ylabel="sexual-recombination capability",
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title="Decorrelation is the fuel:\nρ=0 climbs to the optimum; ρ=1 (clones) buy nothing")
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ax.legend(frameon=False, fontsize=9)
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fig.suptitle("E8 — the vertical claim: an offspring recombined from many decorrelated parents "
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"is fitter than any parent (Fisher–Muller; no two-parent limit)", y=1.02, fontsize=12)
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fig.tight_layout()
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savefig(fig, results_dir, "E8")
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if __name__ == "__main__":
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main(*sys.argv[1:])
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