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:
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#!/bin/bash |
...
#PBS -P <Project> |
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#PBS -l select=1:ncpus=1:mem=4gb |
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#PBS -l walltime=4:00:00 |
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module load R/3.6.0 |
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cd "${PBS_O_WORKDIR}" |
...
Rscript myscript.R |
Installing R packages
To install additional Libraries
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#Start an interactive job (so you have enough RAM/CPU to complete the install.) |
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qsub -I -P <PROJECT> |
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#Once it starts, load the version of R you want. |
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module load R/4.1.1 |
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#Launch an interactive R terminal |
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R |
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#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). |
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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/")