How to submit an R job on linux ?

Question

I am a engineer newbie to R and have got a script which I have to run on linux, I searched alot but was not able to find a simple command to run the script on linux. I have to couple my engineering software with R so I need to run it also on linux.

My script name is  myscipt.R and I want to use 2 cpus to run that script.

kindly help me with the startup.

best regards.

Answer 1

This works for me:

R CMD BATCH myscript.R

As an example, the following should produce a .csv file of a random generated matrix. I have always named this scripts with an ".R" extension, but I'm not sure that that is necessary.

The script to call (named "testscript.R") contains the following lines of code:

set.seed(1)
M<-matrix(runif(20),5,4)
write.csv(M, file="M.csv")

Then call this script in your console as illustrated above:

R CMD BATCH testscript.R

On my machine, this produces the "M.csv" document, which looks like this:

    "","V1","V2","V3","V4"
"1",0.2655086631421,0.898389684967697,0.205974574899301,0.497699242085218
"2",0.37212389963679,0.944675268605351,0.176556752528995,0.717618508264422
"3",0.572853363351896,0.660797792486846,0.687022846657783,0.991906094830483
"4",0.908207789994776,0.62911404389888,0.384103718213737,0.380035179434344
"5",0.201681931037456,0.0617862704675645,0.769841419998556,0.777445221319795

Also, a "testscript.Rout" file is produced giving the R console output:

R version 2.14.0 (2011-10-31)
Copyright (C) 2011 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
Platform: i386-pc-solaris2.10 (32-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

[Previously saved workspace restored]

> set.seed(1)
> M<-matrix(runif(20),5,4)
> write.csv(M, file="M.csv")
> 
> proc.time()
   user  system elapsed 
  9.075   0.257   9.362 

Hope that explains it better.