Personal tools


From UABgrid Documentation

Jump to: navigation, search

This page is a Generic stub.

You can help by expanding this page..

R is a free software environment for statistical computing and graphics.

SGE module files

The following Modules files should be loaded for this package:

module load R/R-2.7.2

For other versions, simply replace the version number

module load R/R-2.11.1

The following libraries are available, additional libraries should be installed by the user under ~/R_exlibs

  • /share/apps/R/R-X.X.X/gnu/lib/R/library
    • The default libraries that come with R
    • Rmpi
    • Snow
  • /share/apps/R/R-X.X.X/gnu/lib/R/bioc
    • BioConductor libraries (default package set using getBioC)

SGE Job script

Sample R Grid Engine Job Script This is an example of a serial (i.e. non parallel) R job that has a 2 hour run time limit requesting 256M of RAM

#$ -S /bin/bash
#$ -cwd
#$ -j y
#$ -N rtestjob
# Use '#$ -m n' instead to disable all email for this job
#$ -m eas
#$ -l h_rt=2:00:00,s_rt=1:55:00
#$ -l vf=256M
. /etc/profile.d/
module load R/R-2.7.2


R CMD BATCH rscript.R