Attention: Confluence is not suitable for the storage of highly confidential data. Please ensure that any data classified as Highly Protected is stored using a more secure platform.
If you have any questions, please refer to the University's data classification guide or contact ict.askcyber@sydney.edu.au
Skip to end of banner
Go to start of banner

R

Skip to end of metadata
Go to start of metadata

You are viewing an old version of this page. View the current version.

Compare with Current View Page History

« Previous Version 5 Next »

R is available on Artemis. You need to load an R "module" before you can run R scripts. See the loading modules guide for more information on software modules.

If you would like to use a newer version of R, submit a High Performance Computing request via the Services Portal.

Example R job

An example single core R job is shown below. Replace <Project> with your project name. Don't include the angle brackets:

#!/bin/bash
#PBS -P <Project>
#PBS -l select=1:ncpus=1:mem=4gb
#PBS -l walltime=4:00:00
 
module load R/3.6.0
cd "${PBS_O_WORKDIR}"
Rscript myscript.R

Installing R packages

To install additional Libraries

#Start an interactive job (so you have enough RAM/CPU to complete the install.)
qsub -I -P <PROJECT>

#Once it starts, load the version of R you want.
module load R/4.1.1

#Launch an interactive R terminal
R

#Now install R packages, probably specifying a directory in /project to install to (otherwise the default location in your /home/unkiey/.R will fill up quickly).
install.packages('SoilR',lib='/project/<PROJECT>/myRLibs/')

After it installs you should be good to go. Keep in mind whenever you want to load the library you must specify the location of your library in your R scripts.

library(SoilR, lib="/project/<PROJECT>/myRLibs/")

  • No labels