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Create the
SBATCH
script. You can create this script on your workstation and then upload it to the Aloe supercomputer. You can also create this script through the shell. To do this:Connect to the web portal and log on with your credentials.
Select “System“ in the navigation bar then select “Aloe Shell Access“. You will be prompted for your credentials and a DUO push will be sent to you.
In the command prompt, use the following commands to create a
SBATCH
script called “MATLAB_test_script.sh“.Code Block nano MATLAB_test_script.sh
In the file editor, specify the resources, MATLAB version, and the MATLAB file needed for your computation. Here is an example of a MATLAB
SBATCH
script:Code Block #!/bin/bash #SBATCH -c 16 # number of TASKS #SBATCH -N 1 # keep all tasks on the same node #SBATCH --mem=120G # request 120 GB of memory #SBATCH -t 0-4 # request 4 hours of walltime module load matlab/latest # load in the lastest version of MATLAB matlab –batch hello.m # run the MATLAB file
This job will allocate 16 cores and 120 GB of memory on one node for four hours. It will also execute the “hello.m“ file with the latest version of MATLAB on the Aloe supercomputer.Save the
SBATCH
script and exit the file editor.
In the command prompt, use the following commands to submit the batch job:
Code Block sbatch MATLAB_test_script.sh
Done. Your job has been submitted. Here are some helpful commands to manage your job:
Code Block myjobs # This will show the status for all of your jobs.
Code Block scancel JOBID # This will cancel one job by using its JOBID.
Code Block scancel –u $USER # This will cancel all of your jobs.
Code Block seff JOBID # This will give the efficiency report for one job by using its JOBID.
Note |
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How will I know how many and which resources to use? Learning to use the supercomputer, like learning how to use other new technologies in your life, will take trial and error. A good starting point is to start with one core for two hours in the the interactive MATLAB graphical application as you get familiar with the supercomputer. You can also request resources to replicate your current workstation to create a baseline. Through this trial and error, you will identify what resources can better improve your computation’s performance. See the “Requesting Resources on Aloe“ guide for additional tips. |
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