To run the workflow to test simply do
make run
To learn NextFlow checkout this documentation:
https://www.nextflow.io/docs/latest/index.html
You will need to have conda, mamba, and nextflow installed.
This code uses other modules such as the NextflowModules. Make sure to run the following after cloning the code:
git submodule update --init --recursive
In order to deploy, we have a set of deployment tools that will enable deployment to the various gnps systems. To run the deployment, use the following commands from the deploy_gnps2 folder.
make deploy-prod
You might need to checkout the module, do this by running
git submodule init
git submodule update