nf-core_modules/tests/modules/controlfreec/makegraph/nextflow.config

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process {
publishDir = { "${params.outdir}/${task.process.tokenize(':')[-1].tokenize('_')[0].toLowerCase()}" }
withName:CONTROLFREEC_FREEC{
ext.args = { [
"sample":[
inputformat: 'pileup',
mateorientation: 'FR'
],
"general" :[
bedgraphoutput: "TRUE",
noisydata: "TRUE",
minexpectedgc: "0",
readcountthreshold: "1",
sex: meta.sex,
window: "10",
],
"control":[
inputformat: "pileup",
mateorientation: "FR"
]
]
}
}
withName:CONTROLFREEC_MAKEGRAPH {
ext.args = "2"
}
}