singularity-rstudio-server

This is a singularity definition file and associated files for building a container with the most recent (at the time of this writing) version of R and Rstudio Server.

To build the container, use the following command:

sudo singularity build rstudio.sif Singularity

To run the container, do the following:

singularity run --bind {host_dir1}:/var/lib/,{host_dir2}:/var/run rstudio.sif --www-port {your port}

You can run the container on humbug (if you don't know what this is, skip this paragraph) using the following:

singularity run --bind /well,/gpfs0,/gpfs1,/gpfs2,{host_dir1}:/var/lib/,{host_dir2}:/var/run rstudio.sif --www-port {remote port}

and setting up an ssh tunnel from your local machine (e.g. your laptop), for example:

ssh -N -f -L {local port}:localhost:{remote port} {your username}@humbug.well.ox.ac.uk

You need to be connected to the centre's VPN for this work.

The following, does not work (yet):

RSTUDIO_PASSWORD="password" \
  singularity run --bind {host_dir1}:/var/lib/,{host_dir2}:/var/run rstudio.sif \
    --auth-none 0 \
    --auth-pam-helper rstudio_auth

For more info, check the definition file Singularity.

I used code from https://github.com/nickjer/singularity-rstudio as a point of departure. Bits of this code still remain in this repository.