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fix(ganymede): Add process resources

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Trimgalore though it can be a bottom neck, doesn't require the 1 big
memory node we have and can be run on the genomics queue.
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Edmund Miller 2021-03-21 21:46:25 -05:00
parent 4570718b12
commit 34ccce9531
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1 changed files with 22 additions and 0 deletions
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conf/utd_ganymede.config
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@ -20,6 +20,28 @@ process {
beforeScript = 'module load singularity/3.2.1' beforeScript = 'module load singularity/3.2.1'
executor = 'slurm' executor = 'slurm'
queue = { task.memory >= 32.GB && task.cpu <= 12 ? 'Kim': task.memory <= 24.GB && task.cpu <= 8 ? 'smallmem' : 'genomics' } queue = { task.memory >= 32.GB && task.cpu <= 12 ? 'Kim': task.memory <= 24.GB && task.cpu <= 8 ? 'smallmem' : 'genomics' }
withName:TRIMGALORE {
memory = 31.GB
}
withLabel:process_low {
cpus = { check_max( 2 * task.attempt, 'cpus' ) }
memory = { check_max( 12.GB * task.attempt, 'memory' ) }
time = { check_max( 6.h * task.attempt, 'time' ) }
}
withLabel:process_medium {
cpus = { check_max( 16 * task.attempt, 'cpus' ) }
memory = { check_max( 31.GB * task.attempt, 'memory' ) }
time = { check_max( 8.h * task.attempt, 'time' ) }
}
withLabel:process_large {
cpus = { check_max( 12 * task.attempt, 'cpus' ) }
memory = { check_max( 1.GB * task.attempt, 'memory' ) }
time = { check_max( 16.h * task.attempt, 'time' ) }
}
} }
params { params {