nf-configs/conf/cheaha.config

// Define the Scratch directory
def scratch_dir = System.getenv("USER_SCRATCH") ?: "/tmp"

params {
    config_profile_name = 'cheaha'
    config_profile_description = 'University of Alabama at Birmingham Cheaha HPC'
    config_profile_contact = 'Lara Ianov (lianov@uab.edu) or Austyn Trull (atrull@uab.edu)'
    config_profile_url = 'https://www.uab.edu/cores/ircp/bds'
}

env {
    TMPDIR="$USER"
    SINGULARITY_TMPDIR="$scratch_dir"
}

singularity {
    enabled = true
    autoMounts = true
    runOptions = "--contain --workdir $scratch_dir"
}

process {
    executor = 'slurm'
    queue = { task.memory <= 50.GB ? (task.time <= 2.h ? 'express' : task.time <= 12.h ? 'short' : task.time <= 50.h ? 'medium' : 'long') : (task.time <= 50.h ? 'largemem' : 'largemem-long')}
    maxRetries = 3
    beforeScript = 'module load Singularity'
}

params {
    max_memory = 750.GB
    max_cpus = 128
    max_time = 150.h
}