Tags

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  • NCB-paper

    protected
    3dc0f54f · release/paper-v1: restore Ape1_stars_info_filled/ (P22L_pure full-role data,... · 
    State published in the paper (Nature Cell Biology)

  • backup/main-pre-condensa-20260715

    fd08c7db · Updated gitignore · 
    Backup of main before rewriting history to feat/this-repo-needs-to-become-beautiful (condensa refactor)

  • refactor-checkpoint

    4295b743 · Phase 8: regression report after refactor · 
    Refactor checkpoint: ape1_io package + seeded randomness + interior cross-RDF

Phases 0-7a complete on branch refactor/shared-particle-io. Phase 7b
(rcParams centralisation in non-RDF notebooks) deferred — see
/memories/session/phase7b_parallel.md for the parallelisable plan.

Headline changes vs main:
- New ape1_io package: config, paths, loaders, style, rdf, hull,
  randomness, qc.
- Shared STAR loader (pyem) replaces 5 copies of load_particle_coordinates.
- Seeded random null model with hull-hash-keyed disk cache.
- Interior cross-RDF g_interior_full(r) with self-pair subtraction;
  additive DataFrame columns preserve full backwards compatibility.
- Hull-QC PNG writer comparing s_v_min vs volume_plateau alpha picks.
- 40 tests passing (was 0 on main).
- regression_guard.py verify: 555/561 OK, 6 expected drifts documented.