nf-configs/conf/imperial.config

//Profile config names for nf-core/configs

params {
    // Config Params
    config_profile_description = 'Imperial College London - HPC Profile -- provided by nf-core/configs.'
    config_profile_url = 'https://www.imperial.ac.uk/admin-services/ict/self-service/research-support/rcs/'

    // Resources
    max_memory = 480.GB
    max_cpus = 40
    max_time = 1000.h
}

executor {
    $pbspro {
        queueSize = 50
    }

    $local {
        cpus = 2
        queueSize = 1
        memory = '6 GB'
    }
}

singularity {
    enabled = true
    autoMounts = true
    runOptions = "-B /rds/,/rds/general/user/$USER/ephemeral/tmp/:/tmp,/rds/general/user/$USER/ephemeral/tmp/:/var/tmp"
}

process {
    executor = 'pbspro'

    // Process-specific resource requirements
    withLabel:process_low {
        // TARGET QUEUE: throughput
        cpus   = { check_max( 2     * task.attempt,  'cpus'   ) }
        memory = { check_max( 12.GB * task.attempt,  'memory' ) }
        time   = { check_max( 4.h   * task.attempt,  'time'   ) }
    }
    withLabel:process_medium {
        // TARGET QUEUE: throughput
        cpus   = { check_max( 8,                     'cpus'   ) }
        memory = { check_max( 32.GB * task.attempt,  'memory' ) }
        time   = { check_max( 8.h   * task.attempt,  'time'   ) }
    }
    withLabel:process_high {
        // TARGET QUEUE: general
        cpus   = { check_max( 32,                    'cpus'   ) }
        memory = { check_max( 62.GB * task.attempt,  'memory' ) }
        time   = { check_max( 16.h  * task.attempt,  'time'   ) }
    }
    withLabel:process_long {
        // TARGET QUEUE: long
        cpus   = { check_max( 8,                     'cpus'   ) }
        memory = { check_max( 96.GB,                 'memory' ) }
        time   = { check_max( 72.h  * task.attempt,  'time'   ) }
    }
    withLabel:process_high_memory {
        // TARGET QUEUE: large memory
        cpus   = { check_max( 10     * task.attempt, 'cpus'   ) }
        memory = { check_max( 120.GB * task.attempt, 'memory' ) }
        time   = { check_max( 12.h   * task.attempt, 'time'   ) }
    }
}