crukcibioinformatics/bss-base repository overview

⁠Containers for CRUK Cambridge Centre Bioinformatics Summer School

This is the build repository for containers to enable learners to work through our training courses away from the venue. Containers are pre-built software environments with all the requisite software tools installed correctly.

⁠Software requirements

To run these containers on your computer you will need to have Docker installed. Docker is available for Linux, Mac and Windows computers. Get the free (Community Edition here⁠).
If you are not familiar with using command-line tools, it is strongly advised that you also install Kitematic⁠ (a Graphical User Interface for running Docker containers).
We also hope to provide Singularity containers (as an alternative to Docker) soon via the Singularity Hub.

⁠Docker hub

Whilst the Dockerfiles and scripts are stored here on Github, the Docker containers are built and made available at the Docker Hub⁠ web-site. The organisation name is crukcibioinformatics and the containers have names beginning with 'bss-' e.g. bss-rnaseq

The containers will publish a web-version of Rstudio (Username: rstudio Password: summerschool). On Kitematic this will appear on the panel as localhost: e.g. localhost:34567. .
Type this into a browser tab to get the Rstudio login page.

To run the container from the command-line (w/o Kitematic) type:
docker run --rm -p 8787:8787 crukcibioinformatics/bss-{container name}.
Visit localhost:8787 in your browser and log in with username rstudio and the password summerschool.