https://github.com/DataBiosphere/toil

A scalable, efficient, cross-platform (Linux/macOS) and easy-to-use workflow engine in pure Python.
https://github.com/DataBiosphere/toil

aws common-workflow-language cwl gridengine kubernetes mesos pipeline python slurm wdl workflow workflow-description-language

Last synced: 3 months ago
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A scalable, efficient, cross-platform (Linux/macOS) and easy-to-use workflow engine in pure Python.

• Host: GitHub
• URL: https://github.com/DataBiosphere/toil
• Owner: DataBiosphere
• License: apache-2.0
• Created: 2015-03-30T21:08:58.000Z (over 9 years ago)
• Default Branch: master
• Last Pushed: 2024-05-22T04:08:06.000Z (6 months ago)
• Last Synced: 2024-05-22T20:30:53.600Z (6 months ago)
• Topics: aws, common-workflow-language, cwl, gridengine, kubernetes, mesos, pipeline, python, slurm, wdl, workflow, workflow-description-language
• Language: Python
• Homepage: http://toil.ucsc-cgl.org/.
• Size: 32.9 MB
• Stars: 874
• Watchers: 54
• Forks: 236
• Open Issues: 401
• Metadata Files:
  • Readme: README.rst
  • Contributing: CONTRIBUTING.md
  • License: LICENSE
  • Code of conduct: CODE_OF_CONDUCT.md
  • Roadmap: ROADMAP.md

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README

        
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Toil is a scalable, efficient, cross-platform (Linux & macOS) pipeline management system,

written entirely in Python, and designed around the principles of functional

programming. It supports running workflows written in either Common Workflow Language (`CWL`_) 1.0-1.2 or 

Workflow Description Language (`WDL`_) 1.0-1.1, as well as having its own rich Python API for writing workflows against. 

It supports running workflows locally on your system (e.g. a laptop), on an HPC cluster, or in the cloud. 

* Check the `website`_ for a description of Toil and its features.

* Full documentation for the latest stable release can be found at

  `Read the Docs`_.

* Please subscribe to low-volume `announce`_ mailing list so we keep you informed

* Google Groups discussion `forum`_

* See our occasional `blog`_ for tutorials. 

* Use `biostars`_ channel for discussion.

.. _website: http://toil.ucsc-cgl.org/

.. _Read the Docs: https://toil.readthedocs.io/en/latest

.. _announce: https://groups.google.com/forum/#!forum/toil-announce

.. _forum: https://groups.google.com/forum/#!forum/toil-community

.. _blog: https://toilpipelines.wordpress.com/

.. _biostars: https://www.biostars.org/t/toil/

.. _CWL: https://www.commonwl.org/

.. _WDL: https://openwdl.org/

Notes:

* Toil moved from https://github.com/BD2KGenomics/toil to https://github.com/DataBiosphere/toil on July 5th, 2018.

* Toil dropped Python 2.7 support on February 13, 2020 (the last working py2.7 version is 3.24.0).