P2 (WIP): raw X/Y assembly, canonical Parquet model, simurg ingest
- signal/raw_xy.py: vectorised Infinium I/II raw X/Y and control assembly
(plan §7.1) with a per-chip address-map cache; IN-027 coverage gate
- core/schemas.py: Arrow schemas (loci, sample_intensity, controls),
deterministic atomic Parquet writing
- pipeline/ingest.py + CLI: discovery, sheet, IN-010 naming, overwrite
check before any work, spawn-based workers, per-sample isolation,
--resume by input hashes, run manifest, exit codes 0/3/4
- matches gtc2vcf raw X/Y and controls exactly on 18 GSA samples;
outputs byte-identical across thread counts and layouts
kemal
82bb3637b4