logannye/Rosalind deterministic analysis contract

Plan, govern, verify, and retain a deterministic per-locus genomics artifact.

Trust Signals

name	description	required	default
index	Legacy .idx reference. Exactly one of index/reference-pack is required.	no	""
reference-pack	Preferred .rref analysis reference. Exactly one of reference-pack/index is required.	no	""
alignments	Path to a coordinate-sorted BAM.	yes	—
budget-mb	Declared memory budget in MiB. The run is refused up front (exit 3) or fails after (exit 4) if the realized peak exceeds it.	yes	—
max-depth	Active-set depth cap (the bound the contract relies on). 0 = uncapped (then --enforce is rejected).	no	1000
max-read-len	Maximum read length assumed and enforced at ingest under --enforce.	no	250
output	Primary artifact path.	no	calls.vcf
analyzer	variants, features, or coverage.	no	variants
format	Feature output format: tsv or arrow-ipc.	no	tsv
region	Optional samtools-style region.	no	""
regions	Optional BED path.	no	""
shard-count	Optional deterministic shard count.	no	""
shard-index	Optional zero-based deterministic shard index.	no	""
require-os-limit	Require an existing cgroup-v2 limit at or below the budget.	no	false
reproduce	Rerun and emit a reproduction certificate (doubles analysis work).	no	false
artifact-name	Uploaded evidence bundle name.	no	rosalind-receipt
version	Rosalind release to download (e.g. v0.1.0), or "latest". Ignored if binary-path is set.	no	latest
binary-path	Optional path to an existing rosalind binary (skips the download — for air-gapped runners or testing the action against a from-source build).	no	""

no outputs