There are many good reasons to use R on HPC infstructure, but that might be somewhat intimidating. This training is for you if you want to learn what the benefits are and how to get started.
However, you will also learn about potential pitfalls and how to avoid them. This training is not just about the good parts, but also about how to avoid the bad parts.
Learning outcomes
When you complete this training you will
- be able to judge when to switch to an HPC environment;
- be able to run a job on an HPC cluster that uses R;
- be able to use R packages that are not installed by default;
- be able to determine how long your computation will take;
- be able to determine how much memory your computation will need;
- be able to estimate the efficiency of your computation;
- know the basics of how to run your R computations efficiently;
- know how to profile your R code to find opportunities for optimization.
Schedule
Total duration: 1.5 hours
| Subject | Duration |
|---|---|
| introduction and motivation | 5 min. |
| running R on an HPC system | 25 min. |
| walltime & memory requirements | 25 min. |
| efficiency | 20 min. |
| profiling | 10 min. |
| wrap up | 5 min. |
Training materials
Slides can be viewed directly on the web. Example projects can be found in the GitHub repository.
Target audience
This training is for you if you need to use R on HPC systems.
Prerequisites
You will need experience working with R. This is not a training that starts from scratch. Familiarity with Linux and HPC systems is a plus, but not a hard requirement.
Trainer(s)
- Geert Jan Bex (geertjan.bex@uhasselt.be)
- Mariana Montes (mariana.montes@kuleuven.be)