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https://github.com/common-workflow-language/common-workflow-language

Repository for the CWL standards. Use https://cwl.discourse.group/ for support 😊
https://github.com/common-workflow-language/common-workflow-language

common-workflow-language commonwl containers cwl science sciworkflows workflow workflows

Last synced: 24 days ago
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Repository for the CWL standards. Use https://cwl.discourse.group/ for support 😊

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README 

        
Common Workflow Language

========================



Main website: https://www.commonwl.org



GitHub repository for www.commonwl.org:

https://www.github.com/common-workflow-language/cwl-website



CWL v1.0.x: https://github.com/common-workflow-language/common-workflow-language (this repository)



CWL v1.1.x: https://github.com/common-workflow-language/cwl-v1.1/



CWL v1.2.x: https://github.com/common-workflow-language/cwl-v1.2/



[**Support**](#Support) [![Gitter](https://badges.gitter.im/Join%20Chat.svg)](https://gitter.im/common-workflow-language/common-workflow-language?utm_source=badge&utm_medium=badge&utm_campaign=pr-badge&utm_content=badge)

[![GitHub stars](https://img.shields.io/github/stars/common-workflow-language/common-workflow-language.svg)](https://github.com/common-workflow-language/common-workflow-language/stargazers)



[Video] Common Workflow Language explained in 64 seconds

The Common Workflow Language (CWL) is a specification for describing analysis

workflows and tools in a way that makes them portable and scalable across a\

variety of software and hardware environments, from workstations to cluster,

cloud, and high performance computing (HPC) environments.  CWL is designed to

meet the needs of data-intensive science, such as Bioinformatics, Medical

Imaging, Astronomy, Physics, and Chemistry.



Open Stand badge

CWL is developed by a multi-vendor working group consisting of

organizations and individuals aiming to enable scientists to share data

analysis workflows.  [The CWL project is maintained on

Github](https://github.com/common-workflow-language/common-workflow-language)

and we follow the [Open-Stand.org principles for collaborative open standards development](https://open-stand.org/about-us/principles/).

Legally, CWL is a member project of [Software Freedom Conservancy](https://sfconservancy.org/news/2018/apr/11/cwl-new-member-project/)

and is formally managed by the elected [CWL leadership team](#Leadership_Team),

however every-day project decisions are made by the [CWL community](#Support)

which is open for participation by anyone.



CWL builds on technologies such as [JSON-LD](https://json-ld.org)

for data modeling and [Docker](https://www.docker.com/) for portable runtime

environments.



## User Guide



The [CWL user guide](https://www.commonwl.org/user_guide/) provides a

gentle introduction to learning how to write CWL command line tool and workflow

descriptions.



[CWLの日本語での解説ドキュメント](https://github.com/pitagora-galaxy/cwl/wiki/CWL-Start-Guide-JP)

is a 15 minute introduction to the CWL project in Japanese.



[**CWL Recommended Practices**](http://www.commonwl.org/user_guide/rec-practices/)



[CWLの日本語での解説ドキュメント](https://github.com/pitagora-galaxy/cwl/wiki/CWL-Start-Guide-JP) is a 15 minute introduction to the

CWL project in Japanese.



A series of [video lessons about CWL](https://stepik.org/lesson/35918/step/1?unit=15070) is available in Russian as part of the [Управление вычислениями](https://stepik.org/course/1612/syllabus)(Computation Management) free online course.



### Citation



To reference the CWL project in a scholary work, please use the following

citation:



Michael R. Crusoe, Sanne Abeln, Alexandru Iosup, Peter Amstutz, John Chilton,

Nebojša Tijanić, Hervé Ménager, Stian Soiland-Reyes, Bogdan Gavrilović,

Carole Goble, and The CWL Community. (2022): **[Methods Included: Standardizing Computational Reuse

and Portability with the Common Workflow Language](https://cacm.acm.org/magazines/2022/6/261172-methods-included/fulltext)**.

Commun. ACM 65, 6 (June 2022), 54–63. https://doi.org/10.1145/3486897



To cite version 1.0 of the CWL standards specifically, please use the following

citation inclusive of the DOI.



Peter Amstutz, Michael R. Crusoe, Nebojša Tijanić (editors), Brad Chapman, John

Chilton, Michael Heuer, Andrey Kartashov, Dan Leehr, Hervé Ménager, Maya

Nedeljkovich, Matt Scales, Stian Soiland-Reyes, Luka Stojanovic (2016):

**Common Workflow Language, v1.0**. Specification, _Common Workflow Language

working group_. [https://w3id.org/cwl/v1.0/](https://w3id.org/cwl/v1.0/)

doi:[10.6084/m9.figshare.3115156.v2](https://doi.org/10.6084/m9.figshare.3115156.v2)



A collection of existing references to CWL can be found at [https://zotero.org/groups/cwl](https://www.zotero.org/groups/2294829/cwl/items)



### Code of Conduct



The CWL Project is dedicated to providing a harassment-free experience for

everyone, regardless of gender, gender identity and expression, sexual

orientation, disability, physical appearance, body size, age, race, or

religion. We do not tolerate harassment of participants in any form.

This code of conduct applies to all CWL Project spaces, including the Google

Group, the Gitter chat room, the Google Hangouts chats, both online and off.

Anyone who violates this code of conduct may be sanctioned or expelled from

these spaces at the discretion of the leadership team.



For more details, see our [Code of

Conduct](https://github.com/common-workflow-language/common-workflow-language/blob/main/CODE_OF_CONDUCT.md).





For the following content:

 - Support, Community and Contributing

 - CWL Implementations

 - Repositories of CWL Tools and Workflows

 - Software for working with CWL

   - Editors and viewers

   - Utilities

   - Converters and code generators

   - Code libraries

 - Projects the CWL community is participating in

 - Participating Organizations

 - Individual Contributors

 - CWL Advisors

 - CWL Leadership team



Please see