This repository contains Dockerfiles to build a Docker image for the rosace deep mutational scanning analysis software. This is provided to simplify the installation of all necessary R libraries and dependencies.
docker pull cbmacdo/rosace-docker:latest
docker run --rm -p 8787:8787 -e PASSWORD=password rosace-dockerThen connect to the Rstudio server in the docker image: http://localhost:8787/
Make sure there is a working Docker installation on your system.
We provide two versions of the rosace-docker image on Docker Hub, both of which are built from
the Dockerfiles in this repository using rocker project
images. the rosace-docker image includes tidyverse and Rstudio in addition to rosace,
while the rosace-docker-minimal image includes only the necessary R libraries to run rosace. This is
reflected in the slightly smaller size of the rosace-docker-minimal image.
This is the easiest way to get started with rosace-docker.
docker pull cbmacdo/rosace-docker:latest
docker run --rm -ti -e PASSWORD=yourpassword -p 8787:8787 -v ./data:/home/rosace/data cbmacdo/rosace-dockerdocker pull cbmacdo/rosace-docker-minimal:latest
docker run --rm -ti -v ./data:/home/rosace/data cbmacdo/rosace-docker-minimalDownload the Dockerfiles from this repository and build the image with the following commands:
docker build -t rosace-docker .docker build -f Dockerfile.minimal -t rosace-docker-minimal .Start the Docker container with the following command (replace the password with your own):
docker run --rm -ti -e PASSWORD=yourpassword -p 8787:8787 -v ./data:/home/rosace/data cbmacdo/rosace-dockerThis will make the data folder in the current working directory available to the Rstudio server in the container at /home/rosace/data.
Change this to whatever directory you would like to mount instead. You can change which port the Rstudio server is
available on by changing the -p flag, in case 8787 is already in use on your system.
Then connect to the Rstudio server in the docker image using the username "rstudio" and the password you chose above: http://localhost:8787/
docker run --rm -ti -v ./data:/home/rosace/data cbmacdo/rosace-docker-minimalThis will make the data folder in the current working directory available to the Rstudio server in the container at /home/rosace/data.
Change this to whatever directory you would like to mount instead.
Rosace is described in the following publication:
This is licensed under the MIT license. See the LICENSE file for details.
Contributions and feedback are welcome. Please submit an issue or pull request.
For any issues, please open an issue on the GitHub repository. For questions or feedback, email Chris.