Giorgio Gilestro
ab3dc10587
- paper/pnas -> paper/manuscript (venue-neutral)
- configs/layer1 -> configs/inheritance, src/knowledge -> src/inheritance
(imported as `inheritance`), make layer1 -> make inheritance; layer2 alias dropped
- inheritance and trained-network bundles named after the manuscript figure
they feed (fig2_grounding_sweep, figS3_rebaselining, ...), or descriptively
where they feed none; configs keep their `experiment:` value so parquet
hashes are unchanged, only output.dir moves
- figure scripts, SI figure sources, notebooks, REPRODUCING.md, README and the
SI Methods/tables updated; make clean no longer deletes tracked manifests;
reproduce.sh hashes the s{seed}/ layouts too
Co-Authored-By: Claude Fable 5.1 <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01Y64o8FKP7rCuXzC48pxpMm
34 lines
1.7 KiB
YAML
34 lines
1.7 KiB
YAML
experiment: E14
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kind: mating_system
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seed: 20260709
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n_replicates: 20
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# (Mating systems — monogamy vs promiscuity): a finite population of genotypes evolves on a Kauffman
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# NK landscape, recombining sexually, but the MATE-POOL BREADTH is swept. Agents sit on a ring; an
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# offspring's second parent is drawn from a window of half-width ~ breadth*N/2 around the focal parent,
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# and selection is LOCAL (offspring competes only against the incumbent at its ring position). breadth
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# -> 0 is monogamous / structured (local mating, isolation by distance); breadth = 1 is promiscuous /
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# panmictic (mate with anyone). Crossed with ruggedness K, this is the mating-system image of the E9
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# design rule. Expect: on smooth landscapes (K low) promiscuity maximises the best fitness (spread the
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# single good direction fastest); as ruggedness rises the OPTIMAL breadth SHRINKS toward an intermediate
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# value (full promiscuity prematurely converges below it); and diversity + occupied local optima are
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# monotonically destroyed by breadth at every K, most severely on rugged landscapes. Falsifier: the best
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# breadth is independent of K (no crossover), or promiscuity is best at every ruggedness.
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mating:
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L: 12 # loci (genotype space 2^L)
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N: 48 # population size (ring positions)
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breadth: 1.0 # mate-pool breadth in [0,1] (overwritten by the sweep)
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K: 0 # landscape ruggedness / epistasis (overwritten by the sweep)
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recomb_rate: 0.5 # per-gap crossover rate (near-free reassortment within a mating)
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mu: 0.003 # per-locus mutation rate
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generations: 60
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sweep:
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- param: mating.K
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values: [0, 3, 6, 10]
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- param: mating.breadth
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values: [0.03, 0.08, 0.17, 0.35, 0.6, 1.0]
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output: {dir: results/figS13_mating_breadth}
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