Synopsis: This course is aimed at researchers who currently use the University of Sydney’s High Performance Computing (HPC) cluster ‘Artemis’ and would like to learn how to automate multiple-run analyses with job arrays, and do simple bash scripting on Artemis.
The live training consists of instruction and practical exercises, covering: Simple job arrays using the subjob-index as paramter; using the job-name strong as paramter; and using configuration for more complex analyses.
Target audience: Students and staff who are already using the Artemis HPC and who would like to learn how to use job arrays and bash scripting to automate the submission of multiple jobs simultaneously.
Follow-on courses: This course is part three of the Artemis HPC Training Series.
The final lesson, ‘Matlab on Artemis: The MDCS’, is an optional course for users of MATLAB who would like to submit jobs directly to the cluster from their local computers.
You must take ‘Introduction to Artemis HPC’ before attempting this course. You are assumed to know how to connect to Artemis, navigate its filesystem and submit jobs to the PBS Scheduler.
Competency on the Unix/Linux command line:
- If you are interested in learning HPC but have no Unix/Linux command-line skills, you MUST first take an Introduction to Unix/Linux course.
OWN LAPTOP REQUIRED.
Please fill out our course survey before you leave!
Help us help you!
|Setup||Install software and data needed to begin the lesson|
|00:00||1. Welcome back to Artemis HPC||Who are the Sydney Informatics Hub?|
|00:15||2. Automating with Array Jobs||How to run multiple similar jobs|
|00:50||4. Automating with Arrays Jobs||Using array jobs to ‘batch’ analyses|
|01:25||6. More ways to automate||Further ways to automate jobs, with arrays and scripts|
The actual schedule may vary slightly depending on the topics and exercises chosen by the instructor.