File Info

Filename
.command.sh
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d1/69c595fe04d0114a355f7d85629aa1/.command.sh
Size
564 bytes
Task
NFCORE_SAREK:SAREK:VCF_TMB:VCF_ANNOTATE_SNPEFF:TABIX_BGZIPTABIX (PX_FFPE_kid_nat_03_03_A23WJ5GLT4_1_vs_1136_6I8-N1-BDNA-1_B23MHTGLT4_1;tnseq)
Attempt

Content

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#!/bin/bash -Ceuo pipefail
bgzip  --threads 1 -c  PX_FFPE_kid_nat_03_03_A23WJ5GLT4_1_vs_1136_6I8-N1-BDNA-1_B23MHTGLT4_1.tnseq.filtered_snpEff.ann.vcf > PX_FFPE_kid_nat_03_03_A23WJ5GLT4_1_vs_1136_6I8-N1-BDNA-1_B23MHTGLT4_1.tnseq.filtered_snpEff.ann.vcf.gz
tabix --threads 1  PX_FFPE_kid_nat_03_03_A23WJ5GLT4_1_vs_1136_6I8-N1-BDNA-1_B23MHTGLT4_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