nf-configs/conf/vsc_ugent.config

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

// Specify the work directory
workDir = "$scratch_dir/work"

// Perform work directory cleanup when the run has succesfully completed
// cleanup = true

// Reduce the job submit rate to about 10 per second, this way the server won't be bombarded with jobs
executor {
    submitRateLimit = '10 sec'
}

// Specify that singularity should be used and where the cache dir will be for the images
singularity {
    enabled = true
    autoMounts = true
    cacheDir = "$scratch_dir/singularity"
}

// Define profiles for each cluster
profiles {
    skitty {
        params {
            config_profile_description = 'HPC_SKITTY profile for use on the Skitty cluster of the VSC HPC.'
            config_profile_contact = 'Nicolas Vannieuwkerke (@nvnieuwk)'
            config_profile_url = 'https://www.ugent.be/hpc/en'
            max_memory = 177.GB
            max_cpus = 36
            max_time = 72.h
        }

        process {
            executor = 'slurm'
            queue = 'skitty'
            maxRetries = 2
            beforeScript = "export SINGULARITY_CACHEDIR=$scratch_dir/.singularity"
            scratch = "$scratch_dir"
        }
    }

    swalot {
        params {
            config_profile_description = 'HPC_SWALOT profile for use on the Swalot cluster of the VSC HPC.'
            config_profile_contact = 'Nicolas Vannieuwkerke (@nvnieuwk)'
            config_profile_url = 'https://www.ugent.be/hpc/en'
            max_memory = 116.GB
            max_cpus = 20
            max_time = 72.h
        }

        process {
            executor = 'slurm'
            queue = 'swalot'
            maxRetries = 2
            beforeScript = "export SINGULARITY_CACHEDIR=$scratch_dir/.singularity"
            scratch = "$scratch_dir"
        }
    }

    victini {
        params {
            config_profile_description = 'HPC_VICTINI profile for use on the Victini cluster of the VSC HPC.'
            config_profile_contact = 'Nicolas Vannieuwkerke (@nvnieuwk)'
            config_profile_url = 'https://www.ugent.be/hpc/en'
            max_memory = 88.GB
            max_cpus = 36
            max_time = 72.h
        }

        process {
            executor = 'slurm'
            queue = 'victini'
            maxRetries = 2
            beforeScript = "export SINGULARITY_CACHEDIR=$scratch_dir/.singularity"
            scratch = "$scratch_dir"
        }
    }

    kirlia {
        params {
            config_profile_description = 'HPC_KIRLIA profile for use on the Kirlia cluster of the VSC HPC.'
            config_profile_contact = 'Nicolas Vannieuwkerke (@nvnieuwk)'
            config_profile_url = 'https://www.ugent.be/hpc/en'
            max_memory = 738.GB
            max_cpus = 36
            max_time = 72.h
        }

        process {
            executor = 'slurm'
            queue = 'kirlia'
            maxRetries = 2
            beforeScript = "export SINGULARITY_CACHEDIR=$scratch_dir/.singularity"
            scratch = "$scratch_dir"
        }
    }

    doduo {
        params {
            config_profile_description = 'HPC_DODUO profile for use on the Doduo cluster of the VSC HPC.'
            config_profile_contact = 'Nicolas Vannieuwkerke (@nvnieuwk)'
            config_profile_url = 'https://www.ugent.be/hpc/en'
            max_memory = 250.GB
            max_cpus = 96
            max_time = 72.h
        }

        process {
            executor = 'slurm'
            queue = 'doduo'
            maxRetries = 2
            beforeScript = "export SINGULARITY_CACHEDIR=$scratch_dir/.singularity"
            scratch = "$scratch_dir"
        }
    }
}