Jupyter Notebook Kernel for Common Workflow Language

This is a jupyter notebook kernel which enables running Common Workflow Language. It uses cwltool as the execution engine. The goal of the kernel is to improve the human-in-the-loop interaction. The goal of the kernel is to improve human-in-the-loop by improving the following:

• Documenting the workflow
• Enable the developer to execute a workflow with multiple steps splited in multiple JN cells
• Enable the user to execute multiple workflows stitched together
• Ensembl workflows
  • Run the same workflow many times over different datasets or with different settings over the same data sets
  • Run different workflows over the same datasets

Currently windows are not supported

Examples

In examples directory there are many examples which illustrate how to use the kernel.

How to contribute

If you are a CWL developer and you would like to contribute feel free to open an issue and ask for new features you would like to see.