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Peddy update: delete png and add stub (#1180)

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* delete png and add stub

* optional png file generation

Co-authored-by: Chris Cheshire <chris.j.cheshire@gmail.com>
This commit is contained in:
Annick Renevey 2022-01-24 10:28:55 +01:00 committed by GitHub
parent 550df3b006
commit dcce431d51
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1 changed files with 14 additions and 1 deletions
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15
modules/peddy/main.nf
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@ -15,7 +15,7 @@ process PEDDY {
tuple val(meta), path("*.html") , emit: html tuple val(meta), path("*.html") , emit: html
tuple val(meta), path("*.csv") , emit: csv tuple val(meta), path("*.csv") , emit: csv
tuple val(meta), path("*.peddy.ped"), emit: ped tuple val(meta), path("*.peddy.ped"), emit: ped
tuple val(meta), path("*.png") , emit: png tuple val(meta), path("*.png") , optional: true, emit: png
path "versions.yml" , emit: versions path "versions.yml" , emit: versions
script: script:
@ -34,4 +34,17 @@ process PEDDY {
peddy: \$( peddy --version 2>&1 | sed 's/peddy, version //' ) peddy: \$( peddy --version 2>&1 | sed 's/peddy, version //' )
END_VERSIONS END_VERSIONS
""" """
stub:
"""
filename=\$(basename $vcf)
touch \$filename.ped_check.csv
touch \$filename.vs.html
touch \$filename.het_check.csv
touch \$filename.sex_check.csv
touch \$filename.peddy.ped
touch \$filename.html
touch versions.yml
"""
} }