Docker

First login into the GitHub package repository using your GitHub credentials (if you have not already done so) and then run the following:

# docker login docker.pkg.github.com
docker pull docker.pkg.github.com/epiforecasts/covid-us-forecasts/covid-us-forecasts:latest
docker tag docker.pkg.github.com/epiforecasts/covid-us-forecasts/covid-us-forecasts:latest covidusforecasts

To run the docker image run:

docker run -d -p 8787:8787 --name covidusforecasts -e USER=covidusforecasts -e PASSWORD=covidusforecasts covidusforecasts

The rstudio client can be found on port :8787 at your local machines ip. The default username:password is covidusforecasts:covidusforecasts, set the user with -e USER=username, and the password with - e PASSWORD=newpasswordhere. The default is to save the analysis files into the user directory.

To mount a folder (from your current working directory - here assumed to be tmp) in the docker container to your local system use the following in the above docker run command (as given mounts the whole covidusforecasts directory to tmp).

--mount type=bind,source=$(pwd)/tmp,target=/home/covidusforecasts

To access the command line run the following:

docker exec -ti covidusforecasts bash