icr_alma.config

/*
    * -------------------------------------------------
    *  Nextflow nf-core config file for ICR alma HPC
    * -------------------------------------------------
    * Defines slurm process executor and singularity
    * settings.
    *
    */
params {

    config_profile_description = "Nextflow nf-core profile for ICR alma HPC"
    config_profile_contact = "Rachel Alcraft (@rachelicr), Mira Sarkis (@msarkis-icr)"
    max_memory = 256.GB
    max_cpus = 30
    max_time = 5.d
}

process {
    queue="compute"
    executor = "slurm"
    maxRetries    = 3
    maxErrors     = '-1'
    clusterOptions = '--mem-per-cpu=8000'

    resourceLimits = [
        memory: 256.GB,
        cpus: 30,
        time: 5.d
    ]

}
// Preform work directory cleanup after a successful run
cleanup = true

executor {
    // This is set because of an issue with too many
    // singularity containers launching at once, they
    // cause an singularity error with exit code 255.
    submitRateLimit = "2 sec"
    perCpuMemAllocation = true
}

singularity {
    enabled = true
    runOptions = "--bind /mnt:/mnt --bind /data:/data"
    autoMounts = true
    pullTimeout = 2.h
    cacheDir = '/data/scratch/shared/SINGULARITY-DOWNLOAD/nextflow/.singularity'
}