.command.sh - Workdir - NFCORE_SAREK:SAREK:VCF_ANNOTATE_ALL:VCF_ANNOTATE_MERGE:TABIX_TABIX (HCC1395_tumor_vs_HCC1395_BL;manta)

File Info

Filename: .command.sh
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d6/4e990a64d6e30363b5d4b15cc80a7f/.command.sh
Size: 332 bytes
Task: NFCORE_SAREK:SAREK:VCF_ANNOTATE_ALL:VCF_ANNOTATE_MERGE:TABIX_TABIX (HCC1395_tumor_vs_HCC1395_BL;manta)
Attempt

Content

#!/bin/bash -Ceuo pipefail
tabix \
    --threads 1 \
     \
    HCC1395_tumor_vs_HCC1395_BL.manta.diploid_sv_custom.ann_snpEff_VEP.ann.vcf.gz

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