.command.sh - Workdir - NFCORE_SAREK:SAREK:VCF_QC_BCFTOOLS_VCFTOOLS:VCFTOOLS_TSTV_COUNT (1029_11H;tnseq)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d4/2f4ddd7d1bb0118d0a125cd4b6846a/.command.sh
Size: 348 bytes
Task: NFCORE_SAREK:SAREK:VCF_QC_BCFTOOLS_VCFTOOLS:VCFTOOLS_TSTV_COUNT (1029_11H;tnseq)
Attempt

Content

#!/bin/bash -Ceuo pipefail
vcftools \
    --gzvcf 1029_11H.tnseq.filtered.vcf.gz \
    --out 1029_11H.tnseq.filtered \
    --TsTv-by-count \
     \


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