feat: Add SHORAH_SHOTGUN process
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23
main.nf
23
main.nf
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@ -165,6 +165,29 @@ process SHORAH_AMPLICON {
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"""
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"""
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}
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}
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process SHORAH_SHOTGUN {
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label 'process_high'
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container 'quay.io/biocontainers/shorah:1.99.2--py38h73782ee_8'
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input:
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tuple val(prefix), path(bam)
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path(reference)
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output:
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tuple val(prefix), path("*.vcf")
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tuple val(prefix), path("*support.fas")
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publishDir "results/shorah-shotgun", mode: 'copy'
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script:
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"""
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shorah shotgun \\
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-t ${task.cpus} \\
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-f ${reference} \\
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-b ${bam} \\
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"""
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}
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process HAPLINK_VARIANTS {
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process HAPLINK_VARIANTS {
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cpus 2
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cpus 2
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memory '12.GB'
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memory '12.GB'
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