R

There are two R releases available on FLOW and HERO. The actual relase is available by

 module load r/3.0.1

With this command the corresponding Intel compilers and Intel MPI will be automatically loaded.

Note: The release 2.15.2 is deprecated and only for legacy on the system.

Additional installed packages

The actual release contains a lot of additional R packages, for example

  chron, abind, ade4, akima, bitops, caTools, circular, doMC, doMPI, ensembleBMA, foreach, gdata, geosphere,
  gplots, gtools, hht, iterators, lattice, latticeExtra, ncdf, raster, RColorBrewer, RCurl, RMpi, signal, solaR,
  stringr, timeDate, truncnorm, VGAM, zoo

and many more...

Usage of R and MPI

For parallel scripts the R installation contains the package Rmpi. To launch an parallel R script inside an SGE script please use command line

  mpirun -bootstrap sge -np $NSLOTS -env I_MPI_FABRICS shm:ofa R --slave CMD BATCH SCRIPTNAME SCRIPT_CMDLINE_OPTIONS

to enable SGE to control all processes of your script.

The corresponding parallel environment in the SGE submission script is specified by

 #$ -pe impi41 NUMBER_OF_CORES
 #$ -R y

External links

• R project
• R manuals