Versions
As of this article update, we have the following versions of R installed on Talapas:
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Note: packages within each version of R are not the same! There may be different packages or different package versions. |
Intel R
Intel is the default. To run an Intel compiled version of R, e.g 4.0.2, run:
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$ module load R/4.0.2 $ R |
gcc R
We have 2 versions of R compiled with gcc7 (3.6.1_gcc7 and 4.0.2_gcc7) built specifically to support RStan. To use these versions you must first load gcc. E.g. 4.0.2, run:
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The output above shows the executable to R version 4.0.2 built with gcc7.
R Packages
To list installed packages and version information, run:
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$ module load R/4.0.2
$ R
> installed.packages()[,c("Package","Version")]
Package Version
abind "abind" "1.4-5"
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Running R Interactive
ssh onto a talapas login node, How-to Log Into Talapas
Start an interactive job, How-to Start an Interactive Job
Once on the allocated node enter,
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$ module load R/4.0.2 $ R |
Running R in Batch
For longer running non-interactive use cases call R in batch.
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The example above preserves R session output. Also include the save.image function in your demo.r file, e.g. save.image("/gpfs/projects/<pirg-name>/<user-name>/demo.RData")
Submit the job
Use the sbatch command to submit the job.
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