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main: keep only what reproduces the manuscript; everything else lives on dev

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Removed from main (all preserved on the dev branch): the arXiv build and
its sources, design documents (blueprint, results summary, review responses,
essay drafts), tasks/ and CLAUDE.md, the cover letter and reference tooling,
two unused manuscript figures, and every experiment that feeds no figure or
number in the paper: the collapse null, the sexual-vs-asexual lineage, the
NK speciation variant, the 0.5B single-seed LLM prototypes, the compose and
society experiments with their calibration and pilot runs, and their
configs, runners, tests, figure scripts and PBS jobs. Their result bundles
are moved to results/_archive/ (ignored) so the parquets stay on disk.

Also: plot_llm_speciation reads the s{seed}/ layout; the mating-breadth
plot writes under its bundle name; Makefile targets reduced to the kept
experiments; REPRODUCING.md and README point to dev for the rest.

Co-Authored-By: Claude Fable 5.1 <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01Y64o8FKP7rCuXzC48pxpMm
This commit is contained in:
Giorgio Gilestro 2026-09-13 17:07:23 +01:00
parent ab3dc10587
commit 6f8cef1ac5
292 changed files with 26 additions and 15590 deletions
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4
figures/plot_llm_speciation.py
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@ -29,7 +29,7 @@ from pathlib import Path
import matplotlib.pyplot as plt
sys.path.insert(0, str(Path(__file__).parent))
from _figlib import load_bundle, savefig # noqa: E402
from _figlib import load_bundle, load_seed_bundles, savefig # noqa: E402
def _series(df, mode, model, metric):
@ -39,7 +39,7 @@ def _series(df, mode, model, metric):
def main() -> None:
rep, _ = load_bundle("results/llm_speciation")
rep, _ = load_seed_bundles("results/llm_speciation") # s{seed}/ layout, seeds 1-3
add, _ = load_bundle("results/llm_speciation_add")
fam_a = "strings" if (rep["metric"] == "strings").any() else "lists"
fam_b = "arith"