gparadis / singularity-r

Singularity Hub build recipe for a singularity container running R (based on https://github.com/nickjer/singularity-r).

Singularity R

Singularity image for R.

This is still a work in progress.

Build

You can build a local Singularity image named singularity-r.simg with:

sudo singularity build singularity-r.simg Singularity

Deploy

Instead of building it yourself you can download the pre-built image from Singularity Hub with:

singularity pull --name singularity-r.simg shub://nickjer/singularity-r

Run

R

The R command is launched using the default run command:

singularity run singularity-r.simg

or as an explicit app:

singularity run --app R singularity-r.simg

Example:

$ singularity run --app R singularity-r.simg --version
R version 3.4.3 (2017-11-30) -- "Kite-Eating Tree"
Copyright (C) 2017 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under the terms of the
GNU General Public License versions 2 or 3.
For more information about these matters see
http://www.gnu.org/licenses/.

Rscript

The Rscript command is launched as an explicit app:

singularity run --app Rscript singularity-r.simg

Example:

$ singularity run --app Rscript singularity-r.simg --version
R scripting front-end version 3.4.3 (2017-11-30)

Contributing

Bug reports and pull requests are welcome on GitHub at https://github.com/nickjer/singularity-r.

License

The code is available as open source under the terms of the MIT License.