I’m not sure they are. Your module list is saying there are no modules loaded so the prereqs likely aren’t there from a module purge somewhere maybe? In your before.sh possibly. We can see that here:
At the least we should see R loaded. There should be some module loads in the script for the needed modules such as R.
Also, what version of Rstudio are you running?
I still am not sure where the cd ${HOME} is that you say is ran at the bottom of the script either.
This thread may be of some use to gather what you may need to set to run without singularity: