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R
- Stephen Kolmann
- nathan butterworth
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.RInstalling 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/")