File Info

Filename
.command.sh
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/7692f1f9ca0a4db0f4bd139ffa9631/.command.sh
Size
591 bytes
Task
NFCORE_SAREK:SAREK:VCF_TMB:VCF_ANNOTATE_SNPEFF:TABIX_BGZIPTABIX (FFPE_HD789_01_p2_gDNA_03_A23WJ5GLT4_1_vs_NA12878_c_0002_gDNA_0005_B23KYWJLT4_1;tnseq)
Attempt

Content

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#!/bin/bash -Ceuo pipefail
bgzip  --threads 1 -c  FFPE_HD789_01_p2_gDNA_03_A23WJ5GLT4_1_vs_NA12878_c_0002_gDNA_0005_B23KYWJLT4_1.tnseq.filtered_snpEff.ann.vcf > FFPE_HD789_01_p2_gDNA_03_A23WJ5GLT4_1_vs_NA12878_c_0002_gDNA_0005_B23KYWJLT4_1.tnseq.filtered_snpEff.ann.vcf.gz
tabix --threads 1  FFPE_HD789_01_p2_gDNA_03_A23WJ5GLT4_1_vs_NA12878_c_0002_gDNA_0005_B23KYWJLT4_1.tnseq.filtered_snpEff.ann.vcf.gz

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