Demo to explore the Vantage6 framework using a relational database to store the node's data.

Run the following command sh start_all.sh to:

• create the necessary docker volumes
• run the docker-compose file
• set-up the server database

Additionally, it's possible to use the flag -o (command sh start_all.sh -o) in order to import psql files as the databases. It could be used to import more complex databased, such as the OMOP CDM. Make sure to include both files (maastro.psql, mumc.psql) in the folder /db/data.

The docker-compose file will create:

• a container running a postgres database
• a container running a database manager accessible on localhost:8080
• the server and two nodes

The docker-compose can be modified to any specific need e.g. having additional nodes.

After successfully starting the services, the vantage6 client can be used to interact with the server.

1. Go to the folder /researcher/python
2. Execute sh run.sh or python3 run.py if you have the dependencies already installed in your local python version.

The run.py file contains the actual code as a researcher to execute a train on the infrastructure.

1. Go to the folder /researcher/R
2. Execute sh run.sh

The test.r file contains the actual code as a researcher to execute a train on the infrastructure.

Run the following command sh stop_all.sh to stop and remove the containers, volumes, and networks.

You can login to the shell by using the server/shell.sh script (executing cd server && sh shell.sh). This will open an IPython shell in the server, were users/nodes/collaborations can be added/modified/added. An example is available in server/setup_fixtures.py.