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52 lines
1.2 KiB
Text
52 lines
1.2 KiB
Text
//Profile config names for nf-core/configs
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params {
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config_profile_description = 'Cancer Research UK Manchester Institute HPC cluster profile provided by nf-core/configs'
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config_profile_contact = 'Stephen Kitcatt, Simon Pearce (@skitcattCRUKMI, @sppearce)'
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config_profile_url = 'http://scicom.picr.man.ac.uk/projects/user-support/wiki'
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}
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env {
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SINGULARITY_CACHEDIR = '/lmod/nextflow_software'
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}
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singularity {
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enabled = true
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autoMounts = true
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}
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process {
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beforeScript = 'module load apps/singularity/3.8.0'
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executor = 'pbs'
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errorStrategy = {task.exitStatus in [143,137,104,134,139,140] ? 'retry' : 'finish'}
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maxErrors = '-1'
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maxRetries = 3
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withLabel:process_low {
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cpus = { check_max( 1 * task.attempt, 'cpus' ) }
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memory = { check_max( 5.GB * task.attempt, 'memory' ) }
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}
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withLabel:process_medium {
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cpus = { check_max( 4 * task.attempt, 'cpus' ) }
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memory = { check_max( 20.GB * task.attempt, 'memory' ) }
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}
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withLabel:process_high {
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cpus = { check_max( 16 * task.attempt, 'cpus' ) }
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memory = { check_max( 80.GB * task.attempt, 'memory' ) }
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}
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}
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executor {
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name = 'pbs'
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queueSize = 1000
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pollInterval = '10 sec'
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}
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params {
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max_memory = 2000.GB
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max_cpus = 32
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max_time = 72.h
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}
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