BSI wiki

First you need to verify that your environment is properly set.

>ssh login@surf

The sbatch command allow you to submit a script with commands to the cluster

>sbatch -p surf cmd

• The command then gives a job execution number.

• >scontrol show job <job-number>

  allows you to follow the execution of the job

• >scontrol show job <job-number>

  allows you to kill the job

The job will generate output files:

• slurm-<job-number>.out in the directory from which the sbatch command was executed
• slurm-<job-number>.e in case of errors

In case of necessity the debug line

sbatch -p debug

allows you to use two additional lames (16 procs with 24GB memory)

There are options to:

• specify the memory required

  >sbatch -p surf --mem=xxMB

• specify the number of processors required

  >sbatch -p surf --cpus--per-task=24

  (if you specify more than 24, the number of available lames for your job will be very limited)

The cmd script must start with

#!/bin/bash

and should set the necessary environement. All alias can be checked with the command

>alias