How to Set Up an R Environment in JupyterLab

R is available in JupyterLab by activating the environment via the anaconda_Rcpu module. R will run on the CPU cores (not GPU enabled).

1. Start a new Jupyter Lab session in Open OnDemand.

2. In the JupyterLab Launcher, start a new Terminal session.

   

3. If you are automatically launching a Conda environment in your default shell setup, deactivate it.

   $ conda deactivate
   

4. Load the R environment.

   $ module load anaconda3_Rcpu
   

5. Launch R.

   $ R
   

6. You should now be in an R session (your terminal prompt will change from $ to >). Inside the R session, run IRkernel::installspec().

   > IRkernel::installspec()
   

7. Quit R.

   > q()
   

8. Close the Terminal window in JupyterLab. That should return you to the JupyterLab Launcher (if it doesn’t, open a new Launcher window).

9. Reload the web page containing the Launcher. Options for an R notebook and console should be available.

   

10. Open an R notebook (or console) and proceed to use R.