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= Job Scripts = <<TableOfContents(3)>> |
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| {{{#!/bin/bash |
{{{ |
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| cd ${SLURM_SUBMIT_DIR} |
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someApp <args> |
someApp |
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Job Scripts
Serial Single Threaded
This example illustrates a job script designed to run a simple single-threaded processes on a single compute node:
#SBATCH --job-name=mySerialjob #SBATCH --nodes=1 #SBATCH --ntasks-per-node=1 #SBATCH --cpus-per-task=1 #SBATCH --time=0-00:20:00 #SBATCH --mem=3102 module load someApp someApp
Explanation
A single process run only requires 1 node, as well as 1 cpu and a single task. These are reflected in the example script. We change to the same directory from where we submitted the job ( ${SLURM_SUBMIT_DIR} to produce our output. Then we load the module "someApp" and execute it.
Multi-Threaded Single Node
In this example we are running an application capable of utilizing multiple process threads on a single node (BLAST):
#SBATCH --job-name=myBLASTjob
#SBATCH --nodes=1
#SBATCH --ntasks-per-node=1
#SBATCH --cpus-per-task=8
#SBATCH --time=0-01:00:00
#SBATCH --mem=3102
cd ${SLURM_SUBMIT_DIR}
module load BLAST
blastn --num_threads 8 <...>
Explanation
In this case we still have a single task (our blastn run) but we require 8 cpu cores to accommodate the 8 threads we've specified on the command line. The ellipses between the angle brackets represents the balance of our command line arguments.
command
CategoryHPC