kemalandClaude Opus 5.5 56d250c621 P5: cloud task for cohort QC validation; configurable gp3 throughput; batched contamination map ...

- scripts/cloud/tasks/p5.sh: P4 preset re-check, genotype (v5) with QC, validate_p5_large.py
- scripts/validate_p5_large.py: identify samples via het pattern vs 1000G VCF; sex, parent-offspring,
  Mendel, contamination/control distributions
- trial.sh: DISK_MBPS / DISK_IOPS
- qc/contamination: bounded map batches (executor.map submits eagerly)

Co-Authored-By: Claude Opus 5.5 <[email protected]>
Claude-Session: https://claude.ai/code/session_01814GKVzZVL3FuF3DeiZXhv

2026-09-28 09:10:02 +01:00

..

cloud

P5: cloud task for cohort QC validation; configurable gp3 throughput; batched contamination map

2026-09-28 09:10:02 +01:00

bootstrap_refs.sh

SimurgArray: master plan, repo scaffolding and data/ref fetch scripts

2026-09-27 15:20:06 +01:00

fetch_data.sh

P0: project setup (packaging, CI, licences, data/oracle scripts)

2026-09-27 16:56:39 +01:00

make_oracle_gtcs.sh

P5a: QC — control metrics, thresholds, status, contamination, relatedness, locus summary

2026-09-28 08:35:10 +01:00

make_oracle_qc.sh

P5a: QC — control metrics, thresholds, status, contamination, relatedness, locus summary

2026-09-28 08:35:10 +01:00

validate_p1_large.py

P2 validation: oracle test and large-scale raw X/Y check

2026-09-27 20:57:42 +01:00

validate_p3_large.py

P3: vectorised nearest-neighbour search; task-driven cloud trials

2026-09-27 22:57:03 +01:00

validate_p4_large.py

P4 validated on 2141 vendor GTCs; legacy AutoCall 1.6.2 preset

2026-09-28 01:21:49 +01:00

validate_p5_large.py

P5: cloud task for cohort QC validation; configurable gp3 throughput; batched contamination map

2026-09-28 09:10:02 +01:00