.command.err - Workdir - NFCORE_SAREK:SAREK:BAM_CHIP_DETECTION:PRE_FILTER_CHIP_CANDIDATES (HCC1395_BL)

File Info

Filename: .command.err
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/19/f7b350021f5be78745e459d1409dc9/.command.err
Size: 499 bytes
Task: NFCORE_SAREK:SAREK:BAM_CHIP_DETECTION:PRE_FILTER_CHIP_CANDIDATES (HCC1395_BL)
Attempt

Content

[INFO] Loading resources...
[INFO] Cohort blacklist: 68611 positions
[INFO] Gene-family blacklist: 76473 positions
[INFO] ENCODE blacklist: 636 intervals
[INFO] Gene tiers: 19423 genes, max_tier=2
[INFO] Pre-filter: 0 PASS, 291 FAIL, 291 total
[INFO] Survivors BED: 0 sites written to HCC1395_BL.survivors.bed
[INFO]   no_functional_impact: 212
[INFO]   hard_filter_reject: 50
[INFO]   cohort_blacklist: 18
[INFO]   gene_not_in_universe: 9
[INFO]   pon_artifact: 1
[INFO]   gene_family_blacklist: 1