...
Installing packages in R (for Slime but it might work in other ways):
ssh onto super-genius
Clone slime into the ~/lib/:
git clone https://github.com/cssmillie/slime.git
Then add r/3.0.2
module add r/3.0.2
...
(However, I'm still having trouble running slime)
If i exit out now try to run these on the command line, I had some success with this (although Chris said I need to be in the slime folder because I edited run.r to include the path to until.r to work):
Rscript ~/lib/slime/run.r -m setup -x unique.f5.final.mat.transpose2 -y enigma.meta -o output > commands.sh