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Reduce MPILEUP to 5GB

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SPearce 2022-08-15 11:35:59 +01:00
parent d0662a3acb
commit 8ae3cba5e3
1 changed files with 5 additions and 1 deletions
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6
conf/crukmi.config
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@ -18,6 +18,10 @@ process {
beforeScript = 'module load apps/singularity/3.8.0' beforeScript = 'module load apps/singularity/3.8.0'
executor = 'pbs' executor = 'pbs'
errorStrategy = {task.exitStatus in [143,137,104,134,139,140] ? 'retry' : 'finish'}
maxErrors = '-1'
maxRetries = 3
withLabel:process_low { withLabel:process_low {
cpus = { check_max( 1 * task.attempt, 'cpus' ) } cpus = { check_max( 1 * task.attempt, 'cpus' ) }
memory = { check_max( 5.GB * task.attempt, 'memory' ) } memory = { check_max( 5.GB * task.attempt, 'memory' ) }
@ -35,7 +39,7 @@ process {
withName: 'SAMTOOLS_MPILEUP' { withName: 'SAMTOOLS_MPILEUP' {
cpus = 1 cpus = 1
memory = { 8.GB * task.attempt } memory = { 5.GB * task.attempt }
} }