mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-09-21 15:52:05 +00:00
c189835b1b
* add drafty controlfreec * get sofatware version * use maps in map * update paths to new and soon-to-be merged test files, add more input docu * Stab at documenting args map * Update syntax * Bit more description * Make the linter happy * tests pass locally * Add outputs & docu * tests are failing locally now :/ but cpn file can also be added * All tests passing, need to update test data again to add folder * Clean up files * Clean up files * Clean up files * Don't know how to get the test to run with the direcotry for now. they pass locally though * Make linter happy * Name process back * Update to use tar folder * fix the checksum
26 lines
822 B
Text
26 lines
822 B
Text
process {
|
|
|
|
publishDir = { "${params.outdir}/${task.process.tokenize(':')[-1].tokenize('_')[0].toLowerCase()}" }
|
|
|
|
withName:CONTROLFREEC{
|
|
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"
|
|
]
|
|
]
|
|
}
|
|
}
|
|
}
|