Giorgio Gilestro
6f8cef1ac5
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
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| Evolution of sex for AI.ris | ||
| README.md | ||
| references.csl.json | ||
| references.json | ||
| references.ris | ||
Zotero library for the manuscript's references
Evolution of sex for AI.ris — all 80 references from paper/manuscript/main.md, with metadata
fetched from the publisher of record rather than retyped.
To import: Zotero → File → Import… → choose this file → keep "Place imported collections and items into new collection" ticked. The collection takes its name from the file, so rename the file first if you want a different folder name.
How it was built
build_zotero_library.py (run from the repo root) parses the numbered reference list, resolves a DOI
for each entry, and fetches authoritative metadata by content negotiation against doi.org, which
serves both Crossref and DataCite records. Each Zotero item carries its manuscript reference number
in the Extra/Notes field, so an item can be traced back to its citation.
- 77 of 80 resolved from a DOI. 53 DOIs were already printed in the manuscript; the rest were found by Crossref title search, accepted only when the returned title actually matched (a plain relevance score is not enough — Crossref answers confidently for pre-DOI works).
- 2 needed a hand-verified DOI: ref 17 (Brinkmann et al., Machine culture), where the search returned a different paper with a near-identical title, and ref 64 (Schwarz et al., Progress & Compress), a PMLR paper with no Crossref DOI, cited by its arXiv DOI instead.
- 3 genuinely predate DOIs and are written out by hand in the script: Jenkin 1867, Fisher 1930 (book), Templeton 1986 (book chapter).
resolution-report.tsv records the outcome and source for every entry.
references.csl.json is the same library as CSL-JSON, for any tool that prefers it.
Notes on the records
arXiv DOIs come back from DataCite uppercased and with no venue; the script restores the canonical
10.48550/arXiv.NNNN casing and sets the publication to arXiv with the identifier in the archive
field, so those items do not import as untitled journal articles. Publisher abstracts arrive wrapped
in JATS markup with HTML entities and hard line breaks, all of which are stripped — RIS is
line-oriented, and an unescaped abstract silently corrupts the record that follows it.
Re-run the script after any change to the reference list; it is a pure function of main.md.