Stan on ARC: Difference between revisions

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= Intro to Stan =
= Intro to Stan =
= Installing Stan and rstan on ARC =
= Installing Stan and rstan on ARC =
This requires building your own copy of R from source in your home directory. See the page [[R on ARC | R on ARC]] for more details.
This requires building your own copy of R from source in your home directory. See the page [[R on ARC | R on ARC]] for more details.
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If you request a job with 16 or 32 GB this should be sufficient to build RStan.  
If you request a job with 16 or 32 GB this should be sufficient to build RStan.  
You only have to do this once.
You only have to do this once.
= Links =
[[ARC Software pages]]


= Submitting jobs that use rstan on ARC =
= Submitting jobs that use rstan on ARC =


[[Category:Software]]
[[Category:ARC]]
[[Category:ARC]]
[[Category:Software]]
{{Navbox ARC}}
[[Category:Stub]]
 
{{Navbox Software}}

Latest revision as of 19:38, 18 October 2023

Intro to Stan

Installing Stan and rstan on ARC

This requires building your own copy of R from source in your home directory. See the page R on ARC for more details.

Troubleshooting

If you are trying to build RStan on ARC's login node and the build process fails with an error like this:

g++: fatal error: Killed signal terminated program cc1plus
compilation terminated.
make: *** [/home/maryam.mahmoudighara/software/R-4.2.2/lib64/R/etc/Makeconf:178: grammar_inst.o] Error 1
ERROR: compilation failed for package ‘rstan’

This means that there is not enough RAM on the login node to build RStan. The login node limits all processes to 5 GB belonging to one user, due to its multi-user nature.

You will have to request an interactive job with sufficient memory (RAM) to do this. If you request a job with 16 or 32 GB this should be sufficient to build RStan. You only have to do this once.

Links

ARC Software pages

Submitting jobs that use rstan on ARC