Giorgio Gilestro
db9452c9d4
New analytic result for the evolution-of-sex paper: how far can two lineages diverge before recombination (model merging) stops working? Frames merge failure as biological reproductive isolation via Bateson-Dobzhansky-Muller incompatibilities. src/knowledge/speciation.py, kind: speciation, on the E7-E11 genotype machinery (pure seeded NumPy, bitwise-reproducible; no external simulator whose separate RNG would break that). - BDM construction (E12.yaml): ancestor + two lineages substituting disjoint loci (each parent adaptive, incompatibility-free), a fraction rho of cross-lineage pairs are BDMIs. Sweeping divergence d reproduces the predicted compatible -> outbreeding depression -> hybrid inviability curve; the isolation cliff moves to lower d as epistasis density rises (iso at d=20: 0.00/0.03/0.50 for rho 0.1/0.25/0.5); incompatibilities snowball ~ (d/2)^2 (Orr-Turelli). - NK variant (E12_nk.yaml): parents = hill-climbed local optima; the epistasis wedge — recombination gain flips 0 -> -0.13 and OD rate 0 -> 0.90 as ruggedness K rises. At matched divergence, mergeability is governed by epistasis, the axis no divergence-only ML merge predictor captures. plot_E12.py (3-panel), +7 tests (138 green), README with honest positioning (concedes the empirical phenomenon to Pari 2024 / Zhou 2026 + permutation artefacts to Git Re-Basin; claims the predictive theory + the epistasis wedge). Wired into make layer1. Co-Authored-By: Claude Opus 4.8 <noreply@anthropic.com>
22 lines
943 B
YAML
22 lines
943 B
YAML
experiment: E12_nk
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kind: speciation
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seed: 12
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n_replicates: 15
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# E12 (NK variant) — the EPISTASIS WEDGE, the paper's distinct falsifiable claim: at matched divergence,
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# mergeability is governed by the EPISTASIS (ruggedness K) of the capability landscape, not by divergence
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# alone (every existing ML merge predictor is a divergence measure). Parents are LOCAL OPTIMA reached by
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# hill-climbing a Kauffman NK landscape from random starts; recombining them exposes broken co-adapted
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# blocks. As K rises, recombining two adapted parents flips from a gain (offspring above the worse parent)
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# to outbreeding depression (offspring below it). K=0 (additive) is the no-isolation control.
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speciation:
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landscape: nk
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L: 16
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K: [0, 2, 4, 6, 8, 10] # ruggedness / epistasis knob
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n_pairs: 40 # random parent-pairs (local optima) aggregated per landscape
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recomb_rate: 0.5
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n_offspring: 200
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output:
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dir: results/E12_nk
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