Submit R jobs on Abel

This is an example of a R submit script for use on the Abel cluster. Abel usage is documented at UiOs HPC pages

For normal off-line non-parallell R running on any Linux server, you can simply do e.g.

module load R
R CMD BATCH R_program.r

For large jobs, this script should set you up OK at the Abel cluster:

#!/bin/bash<br/># Job name:<br/>#SBATCH --job-name=R
#
# Project (change to your :
#SBATCH --account=geofag
#
# Wall clock limit:
#SBATCH --time=1000:0:0
#
# Max memory usage per core (MB):
#SBATCH --mem-per-cpu=2000M
#
# Number of tasks (cores):
#SBATCH --ntasks-per-cpu=12
#

##Setup job environment
source /cluster/bin/jobsetup

#Load R module

module load R

#Set variable with number of processors and load mpi

export OMP_NUM_<span id="cke_bm_104E" style="display: none" data-cke-bookmark="1"> </span>THREADS=12
module load R openmpi.gnu
mpirun -np 1 R CMD BATCH --no-save --no-restore R_program.r

#End of script