RStudio on CHPC - Githubissues

mvelinder commented 5 years ago

For those interested in using RStudio on CHPC resources, it's quite easy. https://www.chpc.utah.edu/documentation/software/r-language.php#rstudio

Generally do the following:

enable X11Forwarding on your local machine; edit ~/.ssh/config and add ForwardX11 yes; save and close
or instead of editing ~/.ssh/config you can connect to your favorite CHPC machine via ssh as usual but using the ssh -Y flag; using either approach, connect to your CHPC machine via ssh
on your CHPC environment, do module load R and module load RStudio; add these module load commands to your ~/.custom.sh if you want to load RStudio into your environment by default
start RStudio with the command rstudio; it should launch an Xorg GUI window of RStudio

I've found it helpful to maintain my R environment and project states on CHPC, where it's accessible from any machine via ssh. Let me know if you have problems!

Update: I've had some seg fault's with this approach. In particular running Tom's ggplot code. CHPC wasn't able to help sort it out. But I was able to resolve it by using rstudio in a conda environment. I'd recommend using rstudio in a conda environment like this, instead of the modules from CHPC.

arq5x commented 5 years ago

This is great, thanks @mvelinder

arq5x commented 5 years ago

can ssh -Y ... replace step one?

mvelinder commented 5 years ago

Ah, apparently it can @arq5x ! I didn't know that about ssh. I've updated the top comment

quinlan-lab / sllobs-biostats

RStudio on CHPC #2