Submit R jobs on Abel

This is an example of a Matlab 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<br/>#<br/># Project (change to your :<br/>#SBATCH --account=geofag<br/>#<br/># Wall clock limit:<br/>#SBATCH --time=1000:0:0<br/>#<br/># Max memory usage per core (MB):<br/>#SBATCH --mem-per-cpu=2000M<br/>#<br/># Number of tasks (cores):<br/>#SBATCH --ntasks-per-cpu=12<br/>#

##Setup job environment<br/>source /cluster/bin/jobsetup

#Load R module

module load R<br/><br/>#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