File Info

Filename
.command.sh
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ce/04ba2386466242cd95870c2807c53f/.command.sh
Size
392 bytes
Task
NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_SOMATIC_ALL:SOMATIC_CNV_CALLING:BGZIP_TABIX_TUMOR_ONLY (HCC1395_tumor_vs_HCC1395_BL)
Attempt

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#!/bin/bash -Ceuo pipefail
bgzip -c HCC1395_tumor_vs_HCC1395_BL_somatic.vcf > HCC1395_tumor_vs_HCC1395_BL_somatic.vcf.gz
tabix -p vcf HCC1395_tumor_vs_HCC1395_BL_somatic.vcf.gz

cat <<-END_VERSIONS > versions.yml
"NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_SOMATIC_ALL:SOMATIC_CNV_CALLING:BGZIP_TABIX_TUMOR_ONLY":
    htslib: $(tabix --version | head -1 | sed 's/tabix (htslib) //')
END_VERSIONS