nu_genomics.config

//Profile config names for nf-core/configs
params {
    config_profile_description = 'Northwestern University Quest HPC (Genomics Nodes) config provided by nf-core/configs'
    config_profile_contact     = 'Rogan Grant / Haley Carter / Janna Nugent (@RoganGrant, @hscarter, @NUjon)'
    config_profile_url         = 'https://www.it.northwestern.edu/research/user-services/quest/'
    max_memory                 = 190.GB
    max_cpus                   = 40
    max_time                   = 240.h
    igenomes_base              = "/projects/genomicsshare/AWS_iGenomes/references"
}

singularity {
    enabled    = true
    autoMounts = true
    cacheDir   = "/projects/b1042/singularity_cache"
}

process {
    resourceLimits = [
        memory: 190.GB,
        cpus: 40,
        time: 240.h
    ]
    beforeScript   = 'module purge; module load singularity/latest; module load graphviz/2.40.1; module load java/jdk11.0.10'
    executor       = 'slurm'
    queue          = { task.memory >= 190.GB ? 'genomics-himem' : task.time >= 48.h ? 'genomicslong' : 'genomics' }
    clusterOptions = '-A b1042'
}

executor {
    queueStatInterval = '5min'
    retry.delay       = '1min'
    retry.maxAttempt  = 5
    retry.maxDelay    = '10min'
    pollInterval      = '1min'
    queueSize         = 50
    submitRateLimit   = '10sec'
}