Skip to content
Snippets Groups Projects

FastQ namming using NGL api

Merged Jules Sabban requested to merge dev_Jules into master
9 files
+ 71
27
Compare changes
  • Side-by-side
  • Inline
Files
9
+ 13
3
@@ -125,12 +125,15 @@ process {
withLabel: bwa {
module = toolsModuleHash['BWA']
cpus = { checkMax( 6 * task.attempt, 'cpus' ) }
memory = { checkMax( 8.GB * task.attempt, 'memory' ) }
memory = { checkMax( 16.GB * task.attempt, 'memory' ) }
time = { checkMax( 3.d * task.attempt, 'time' ) }
publishDir = [
path: "${params.outdir}/alignment/bwa",
mode: 'copy'
mode: {
if (params.DTM_mode) 'symlink'
else 'copy'
}
]
}
@@ -207,6 +210,13 @@ process {
}
withName: FILE_RENAME {
ext.args = [
params.run_date ? "--date " + params.run_date : '',
params.ng6_name ? "--ng6_like" : '',
].join(' ')
}
// ----- WithLabel
withLabel: littleJob {
executor = 'local'
@@ -216,7 +226,7 @@ process {
module = toolsModuleHash['SAMTOOLS']
cpus = { checkMax( 6 * task.attempt, 'cpus' ) }
memory = { checkMax( 8.GB * task.attempt, 'memory' ) }
time = { checkMax( 3.h * task.attempt, 'time' ) }
time = { checkMax( 24.h * task.attempt, 'time' ) }
}
withLabel: alignment {
Loading