.command.sh - Workdir - NFCORE_SAREK:SAREK:VCF_QC_BCFTOOLS_VCFTOOLS:VCFTOOLS_SUMMARY (Sig_18_Blood;snv_indel)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/002145d55f7999a7de5b57326c6dca/.command.sh
Size: 366 bytes
Task: NFCORE_SAREK:SAREK:VCF_QC_BCFTOOLS_VCFTOOLS:VCFTOOLS_SUMMARY (Sig_18_Blood;snv_indel)
Attempt

Content

#!/bin/bash -Ceuo pipefail
vcftools \
    --gzvcf Sig_18_Blood.deconflicted_somatic.vcf.gz \
    --out Sig_18_Blood.deconflicted_somatic \
    --FILTER-summary \
     \


cat <<-END_VERSIONS > versions.yml
"NFCORE_SAREK:SAREK:VCF_QC_BCFTOOLS_VCFTOOLS:VCFTOOLS_SUMMARY":
    vcftools: $(echo $(vcftools --version 2>&1) | sed 's/^.*VCFtools (//;s/).*//')
END_VERSIONS