Covid-19 Galaxy container

This repo is used to build the Covid-19 Galaxy container supporting all the genomics an cheminformatics workflows from https://github.com/galaxyproject/SARS-CoV-2

Usage

Building the container

Build command:

docker build -t covid-19-training -f Dockerfile .    

Running the container

Run your container :

docker run --privileged -p 8080:80 covid-19-training

Or run the container from Quay.io:

docker run --privileged -p 8080:80 quay.io/galaxy/covid-19-training

The run command explained:

• -p "8080:80" will let the container host Galaxy on port 8080
• --privileged will allow the conatiner to load a reference genome through CVMFS when needed

Using the container

When the container is running, open a webbrowser and go to http://localhost:8080/ to open the Galaxy interface. This instance will contain all the tools and workflows to execute the COVID-19 analyses. Login as admin using admin as username and password as password to access everything.