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nf-configs/conf/vsc_ugent.config

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// Define the Scratch directory
def scratch_dir = System.getenv("VSC_SCRATCH_VO_USER") ?: "scratch/"
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// Specify the work directory
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workDir = "$scratch_dir/work"
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// Perform work directory cleanup when the run has succesfully completed
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// cleanup = true
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// Reduce the job submit rate to about 5 per second, this way the server won't be bombarded with jobs
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executor {
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submitRateLimit = '3 sec'
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}
// Specify that singularity should be used and where the cache dir will be for the images
singularity {
enabled = true
autoMounts = true
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cacheDir = "$scratch_dir/singularity"
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}
env {
SINGULARITY_CACHEDIR="$scratch_dir/.singularity"
}
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// Define profiles for each cluster
profiles {
skitty {
params {
config_profile_description = 'HPC_SKITTY profile for use on the Skitty cluster of the VSC HPC.'
config_profile_contact = 'Nicolas Vannieuwkerke (@nvnieuwk)'
config_profile_url = 'https://www.ugent.be/hpc/en'
max_memory = 177.GB
max_cpus = 36
max_time = 72.h
}
process {
executor = 'slurm'
queue = 'skitty'
maxRetries = 2
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scratch = "$scratch_dir"
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}
}
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
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scratch = "$scratch_dir"
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}
}
victini {
params {
config_profile_description = 'HPC_VICTINI profile for use on the Victini cluster of the VSC HPC.'
config_profile_contact = 'Nicolas Vannieuwkerke (@nvnieuwk)'
config_profile_url = 'https://www.ugent.be/hpc/en'
max_memory = 88.GB
max_cpus = 36
max_time = 72.h
}
process {
executor = 'slurm'
queue = 'victini'
maxRetries = 2
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scratch = "$scratch_dir"
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}
}
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
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scratch = "$scratch_dir"
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}
}
doduo {
params {
config_profile_description = 'HPC_DODUO profile for use on the Doduo cluster of the VSC HPC.'
config_profile_contact = 'Nicolas Vannieuwkerke (@nvnieuwk)'
config_profile_url = 'https://www.ugent.be/hpc/en'
max_memory = 250.GB
max_cpus = 96
max_time = 72.h
}
process {
executor = 'slurm'
queue = 'doduo'
maxRetries = 2
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scratch = "$scratch_dir"
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}
}
}