https://github.com/giannisdoukas/cwljnikernel

Jupyter Notebook Kernel for Common Workflow Language
https://github.com/giannisdoukas/cwljnikernel

common-workflow-language cwl jupyter-notebook workflows

Last synced: 14 days ago
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Jupyter Notebook Kernel for Common Workflow Language

• Host: GitHub
• URL: https://github.com/giannisdoukas/cwljnikernel
• Owner: giannisdoukas
• License: apache-2.0
• Created: 2020-02-18T19:20:15.000Z (about 5 years ago)
• Default Branch: master
• Last Pushed: 2021-08-23T19:49:39.000Z (over 3 years ago)
• Last Synced: 2025-03-16T18:34:42.723Z (about 1 month ago)
• Topics: common-workflow-language, cwl, jupyter-notebook, workflows
• Language: Python
• Homepage:
• Size: 1.67 MB
• Stars: 4
• Watchers: 1
• Forks: 4
• Open Issues: 2
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

        
# Jupyter Notebook Kernel for Common Workflow Language 

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This is a jupyter notebook kernel which enables running Common Workflow Language. It uses 

[cwltool](https://github.com/common-workflow-language/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. 

![example](examples/example.png)

## 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.