.command.sh - Workdir - DAQ:CONTROL_VARIANT_CALLING:CONTROL_SOMATIC_VC:VCF_SOMATIC_SNV_INDEL:EXTRACT_CHROMOSOMES (positive_somatic_control_1)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7c/9a58e66e6d6a5ad7a00d540aaeff40/.command.sh
Size: 360 bytes
Task: DAQ:CONTROL_VARIANT_CALLING:CONTROL_SOMATIC_VC:VCF_SOMATIC_SNV_INDEL:EXTRACT_CHROMOSOMES (positive_somatic_control_1)
Attempt

Content

#!/bin/bash -Ceuo pipefail
tabix -l positive_somatic_control_1.snv_indel.merged.vcf.gz > positive_somatic_control_1.chromosomes.txt

cat <<-END_VERSIONS > versions.yml
"DAQ:CONTROL_VARIANT_CALLING:CONTROL_SOMATIC_VC:VCF_SOMATIC_SNV_INDEL:EXTRACT_CHROMOSOMES":
    bcftools: $(bcftools --version 2>&1 | head -n1 | sed 's/^.*bcftools //; s/ .*$//')
END_VERSIONS