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Change ternary expressions back to traditional format

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Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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Anders Goncalves da Silva 2021-02-15 19:56:22 -08:00 committed by GitHub
parent 3188b8e30e
commit 26189f4132
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1 changed files with 4 additions and 4 deletions
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8
software/ivar/variants/main.nf
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@ -29,10 +29,10 @@ process IVAR_VARIANTS {
path "*.version.txt" , emit: version
script:
def software = getSoftwareName(task.process)
def prefix = options.suffix ? "${meta.id}${options.suffix}" : "${meta.id}"
def save_mpileup = params.containsKey('save_mpileup') ? "tee ${prefix}.mpileup |" : ""
def gff = params.containsKey('gff') ? "-g ${params.get('gff')}" : ""
def software = getSoftwareName(task.process)
def prefix = options.suffix ? "${meta.id}${options.suffix}" : "${meta.id}"
def save_mpileup = params.save_mpileup ? "tee ${prefix}.mpileup |" : ""
def features = params.gff ? "-g $gff" : ""
"""
samtools mpileup \\
$options.args2 \\