How to combine R code with shell code?

Question

I want to compare the speed of matrix multiplication using different number of cores. I want to write a for loop on number of cores in shell code. But the actual computation is done in R. So it's a mix of bash shell code and R code. Something like the following

for p in {1..8}
do
    export OMP_NUM_THREADS = p

    ## R code for matrix multiplication ##

done

Is this possible to do?

There are numerous techniques to run an R script from the command line. I suggest you write an R script in a separate file, and call it from your bash script with Rscript --vanilla script.R. — nograpes
– nograpes, Commented Oct 23, 2013 at 0:51

Alexander L. Belikoff · Accepted Answer · 2013-10-23 02:17:20Z

1

Rscript is the command to do just that. Make you R script executable and put at the 1st line:

#!/usr/bin/env Rscript

After that, you can treat it as any other program in the system, calling it from bash and whatever else.

answered Oct 23, 2013 at 2:17

Alexander L. Belikoff

5,7331 gold badge27 silver badges34 bronze badges

Sign up to request clarification or add additional context in comments.

Collectives™ on Stack Overflow

How to combine R code with shell code?

1 Answer 1

Comments

Hot Network Questions

Collectives™ on Stack Overflow

1 Answer 1

Comments

Related