Figures

This folder contains Jupyter notebooks to recreate the figures in the manuscript.

To run these notebooks, you can either install Jupyter Notebook and install the dependencies in requirements.txt, or use a pre-existing docker container.

Running the docker container

1. Install Docker
2. Run the following code in terminal

docker run -p 8888:8888 avsastry/modulome-workflow:v1.0

3. Select the third link in terminal (starts with 127.0.0.1)
4. Navigate to the figures folder and open the notebooks.

Mounting local files in the Docker container

If you want to edit and save files in the docker container, replace the above command with the following:

docker run -p 8888:8888 -v <target-path>:/home/jovyan/work avsastry/modulome-workflow:v1.0

The above commands will mount the files in your local <target-path> to /home/jovyan/work in the Docker container. These files are editable, and changes made in the docker container will be reflected on your own machine. Only subfolders and files within <target-path> can be accessed by the container, so it is recommended to input the root folder of this repository as the <target-path>.

For more options, such as changing the default username, changing the port, or granting root access, see the Jupyter Docker Stacks Feature page