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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.

CWL is developed by an informal, multi-vendor working group consisting of organizations and individuals aiming to enable scientists to share data analysis workflows. The CWL project is on Github and we follow the Open-Stand.org principles for collaborative open standards development

CWL builds on technologies such as JSON-LD for data modeling and Docker for portable runtime environments.

The CWL user guide (v1.0) provides a gentle introduction to learning how to write CWL command line tool and workflow descriptions.

For developers and advanced users, the current CWL specification (v1.0.1) provides authoritative documentation of the execution of CWL documents.

Please cite https://dx.doi.org/10.6084/m9.figshare.3115156.v2

Software	Description	CWL support	Platform support
cwltool	Reference implementation of CWL		Linux, OS X, local execution only
Arvados	Distributed computing platform for data analysis on massive data sets. Using CWL on Arvados		AWS, GCP, Azure, Slurm
Toil	Toil is a workflow engine entirely written in Python.		AWS, Azure, GCP, Grid Engine, LSF, Mesos, OpenStack, Slurm
Rabix Bunny	An open-source, Java-based implementation of Common Workflow Language with support for multiple drafts/versions. See Rabix.io for details.		Linux, OS X, GA4GH TES (experimental)
cwl-tes	CWL engine backended by the GA4GH Task Execution API		Local, GCP, AWS, HTCondor, Grid Engine, PBS/Torque, Slurm
Airflow	Airflow updated with CWL-runner feature (supported by BioWardrobe Team, CCHMC)		Linux, OS X
Consonance	orchestration tool for running SeqWare workflows and CWL tools	pending	AWS, OpenStack, Azure
Apache Taverna	Domain-independent Workflow Management System	alpha	Java
Galaxy	Web-based platform for data intensive biomedical research.	alpha	Python
AWE	Workflow and resource management system for bioinformatics data analysis.	alpha	Go
Xenon	Run CWL workflows using Xenon	alpha	any Xenon backend: local, ssh, SLURM, Torque, Grid Engine

The recommended place to ask a question about all things CWL is on Biostars.

If you are interested in learning more or contributing ideas or code, come chat with us on Gitter, check out #CommonWL on Twitter, join the mailing list common-workflow-language on Google Groups or fork the repository and send a pull request!

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

• Curoverse
• Seven Bridges Genomics
• Galaxy Project
• Apache Taverna
• Institut Pasteur
• Wellcome Trust Sanger Institute
• University of California Santa Cruz
• Harvard T.H. Chan School of Public Health
• Cincinnati Children's Hospital Medical Center
• Broad Institute
• University of Melbourne Center for Cancer Research
• Netherlands eScience Center
• Texas Advanced Computing Center Life Science Computing Group / Agave Platform
• CyVerse
• Institute for Systems Biology
• ELIXIR Europe
• BioExcel CoE
• BD2K

(Alphabetical)

• Peter Amstutz [email protected]
• Robin Andeer [email protected]
• Brad Chapman [email protected]
• John Chilton [email protected]
• Michael R. Crusoe [email protected]
• Roman Valls Guimerà [email protected]
• Guillermo Carrasco Hernandez [email protected]
• Kenzo-Hugo Hillion [email protected]
• Sinisa Ivkovic [email protected]
• Sehrish Kanwal [email protected]
• Andrey Kartashov [email protected]
• John Kern [email protected]
• Farah Zaib Khan [email protected]
• Dan Leehr [email protected]
• Hervé Ménager [email protected]
• Maxim Mikheev [email protected]
• Michael Miller [email protected]
• Tim Pierce [email protected]
• Josh Randall [email protected]
• Mark Robinson [email protected]
• Janko Simonović [email protected]
• Stian Soiland-Reyes [email protected]
• Luka Stojanovic [email protected]
• Nebojša Tijanić [email protected]

The CWL Community Engineer, Michael R. Crusoe, publishes a blog about his work with updates at http://mrc.commonwl.org.