Working on the HPC

Presentation given by Stacey Borrego and Angela Garibaldi

Preparation for this presentation

This presentation will focus on running tasks on the HPC with bash scripts. We will look at the basic anatomy of a bash script and explain how to use modules available on the HPC to run a simple task. To prepare for this meeting, please thoroughly read Running Jobs on the HPC cluster as far as 'Batch Job Parallel' and follow the example described in Batch Jobs Serial. It is important that you familiarize yourself with this content and do the 'Batch Jobs Serial' example so it will be easier to follow along with the presentation and get more out of our provided examples.

IMPORTANT: Do not include the $ symbol when following the instructions to run the serial job script.

• This is what is written in the instructions $ mkdir serial-test
• You write mkdir serial-test

Helpful HPC Commands

Once you have logged on the HPC these commands may be useful

• This is a cheat sheet that lists some HPC specific commands and information pages
  • $ cat /data/help/cheat-sheet.txt
• This will list all of the groups you belong to
  • $ groups
• See where you are
  • $ pwd