.command.sh - Workdir - NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_GERMLINE_ALL:BGZIPTABIX_GERMLINE_CNV (HCC1395_BL;null)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f9/1b84916310daf5d10f9c3f55367517/.command.sh
Size: 321 bytes
Task: NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_GERMLINE_ALL:BGZIPTABIX_GERMLINE_CNV (HCC1395_BL;null)
Attempt

Content

#!/bin/bash -Ceuo pipefail
bgzip  --threads 1 -c  HCC1395_BL.vcf > HCC1395_BL.vcf.gz
tabix --threads 1  HCC1395_BL.vcf.gz

cat <<-END_VERSIONS > versions.yml
"NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_GERMLINE_ALL:BGZIPTABIX_GERMLINE_CNV":
    tabix: $(echo $(tabix -h 2>&1) | sed 's/^.*Version: //; s/ .*$//')
END_VERSIONS