R

Introduction

R is a system for statistical computation and graphics.

This is a plain R-base installation (see https://github.com/rocker-org/rocker/) repackaged by RCAC with an addition of a handful prerequisite libraries (libcurl, libopenssl, libxml2, libcairo2 and libXt) and their header files.

For more information, please check its | Docker hub: https://hub.docker.com/_/r-base and its home page: https://www.r-project.org/.

Versions

  • 4.1.1

Commands

  • R

  • Rscript

Module

You can load the modules by:

module load biocontainers
module load r

Example job

Warning

Using #!/bin/sh -l as shebang in the slurm job script will cause the failure of some biocontainer modules. Please use #!/bin/bash instead.

To run R on our clusters:

#!/bin/bash
#SBATCH -A myallocation     # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=r
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out

module --force purge
ml biocontainers r