slurm + nextflow

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Niklas Fomin answered on April 20, 2020 Popularity 3/10 Helpfulness 1/10

answer slurm + nextflow

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params {
  config_profile_description = 'The University of Eastern Finland SLURM cluster profile'
  config_profile_contact = 'Oskari Timonen'
  config_profile_url = ''
}
 
singularity {
  enabled = true
  autoMounts = true
  cacheDir = "/some/fast/directory/for/apptainer/containers"
}
 
process {
  executor = 'slurm'
 
  queue = 'small'
  queueSize = 16
 
//  submitRateLimit = '20/2min'
//  submitRateLimit = '1min'
  maxSubmitJobs = 20
 
  errorStrategy = 'retry'
  maxRetries = 5
  retry.delay = '1min'
 
  time = '1.d'
  cpus = 8
  memory = '20 GB'
 
  clusterOptions = '--job-name=nfSLURM \
	--output=/directory/for/slurm/outputs/2024-03-08_output.txt \
	--error=/directory/for/slurm/error/outputs/2024-03-08_log-error.txt \
}
 
params {
  max_memory = 50.GB
  max_cpus = 32
  max_time = 3.d
}

Popularity 3/10 Helpfulness 1/10 Language whatever

Source: bioinformatics.uef.fi

Tags: nextflow slurm whatever

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Contributed on Sep 29 2024

Niklas Fomin

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Contributed on Aug 09 2020

Ruukasu

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Contributed on Apr 20 2020

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Contributed on May 22 2022

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Contributed on Sep 02 2020

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Contributed on Apr 07 2021

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Contributed on May 01 2022

Tiago R.

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Contributed on Jul 19 2022

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