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Learn to Use HPC Systems and Supercomputers

PBS `qsub`

Explore how to submit jobs using the PBS qsub command for effective HPC job management. Understand how to create batch scripts, specify resources like memory and CPU, set walltime limits, and use advanced resource chunking with select parameters. This lesson helps you gain practical skills in job scheduling within HPC environments.

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When you are new to PBS, the place to start is the qsub command, which submits jobs to your HPC systems. The only jobs that the qsub accepts are scripts, so you’ll need to package your tasks appropriately. Here is a simple example script (myjob.pbs):

Shell
#!/bin/bash
#PBS -N demo // job name
#PBS -o demo.txt // output file
#PBS -e demo.txt // error output file
#PBS -q workq // queue name
#PBS -l mem=100mb // requested memory size
mpiexec -machinefile /etc/myhosts -np 4 /home/user/area

The first line specified the shell to use in interpreting the script, while the next few lines starting with #PBS are directives that are passed to PBS. The first names the job, the next two specify where output and error output go, the next to last identifies the queue that is used, and the last lists a resource that will be needed, in this case ...