File Info

Filename
.command.err
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a0/18f3cc8f364061b14591f7152e7bbf/.command.err
Size
618 bytes
Task
NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_GERMLINE_ALL:BAM_VARIANT_CALLING_SENTIEON_HAPLOTYPER_RF:SENTIEON_HAPLOTYPER_RF_FILTER (HCC1395_BL)
Attempt

Content

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INFO: Loading models...
INFO: Reading VCF: HCC1395_BL.entropy.vcf.gz
INFO: Loaded 354 variants (334 SNVs, 20 INDELs)
INFO:   INDEL entropy: 18 present, 2 missing (using -1 sentinel)
INFO: Annotating with BED files...
INFO:   Blacklist hits: 8
INFO:   Low depth hits: 1
INFO:   Boosted exon hits: 67
INFO:   SNV FP region hits: 24
INFO:   INDEL FP region hits: 8
INFO:   INDEL FP rate lookups (TSV): 15241 variant keys loaded
INFO:   RepeatMasker hits: 22
INFO: Applying models...
INFO: Results: 323 PASS (309 SNV, 14 INDEL), 31 RF_FAIL
INFO: Writing output VCF: HCC1395_BL.haplotyper_rf.rf_filtered.vcf.gz
INFO: Done!