.command.sh - Workdir - NFCORE_SAREK:SAREK:VCF_QC_BCFTOOLS_VCFTOOLS:BCFTOOLS_STATS (seracare_10pct_rep1;manta)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/35/2ad5e687270b1935878cfb74df3a5a/.command.sh
Size: 390 bytes
Task: NFCORE_SAREK:SAREK:VCF_QC_BCFTOOLS_VCFTOOLS:BCFTOOLS_STATS (seracare_10pct_rep1;manta)
Attempt

Content

#!/bin/bash -Ceuo pipefail
bcftools stats \
     \
     \
     \
     \
     \
     \
    seracare_10pct_rep1.manta.somatic_sv.vcf.gz > seracare_10pct_rep1.manta.somatic_sv.bcftools_stats.txt

cat <<-END_VERSIONS > versions.yml
"NFCORE_SAREK:SAREK:VCF_QC_BCFTOOLS_VCFTOOLS:BCFTOOLS_STATS":
    bcftools: $(bcftools --version 2>&1 | head -n1 | sed 's/^.*bcftools //; s/ .*$//')
END_VERSIONS