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From "Stian Soiland-Reyes (JIRA)" <j...@apache.org>
Subject [jira] [Updated] (TAVERNA-877) Parser for Common Workflow Language workflows
Date Thu, 08 Feb 2018 13:58:00 GMT

     [ https://issues.apache.org/jira/browse/TAVERNA-877?page=com.atlassian.jira.plugin.system.issuetabpanels:all-tabpanel

Stian Soiland-Reyes updated TAVERNA-877:
    Labels: cwl gsoc2016 gsoc2018  (was: cwl gsoc2016)

> Parser for Common Workflow Language workflows
> ---------------------------------------------
>                 Key: TAVERNA-877
>                 URL: https://issues.apache.org/jira/browse/TAVERNA-877
>             Project: Apache Taverna
>          Issue Type: New Feature
>          Components: Taverna Language
>            Reporter: Stian Soiland-Reyes
>            Priority: Minor
>              Labels: cwl, gsoc2016, gsoc2018
> Common Workflow Language
> http://common-workflow-language.github.io/
> ..is an emerging standard for computational workflows with a focus on bioinformatics
command line tools using Docker.
> The semantics of CWL are inspired by Taverna's SCUFL2 model and the Wf4Ever wfdesc vocabulary.
> A good first approximation for integration of CWL for Taverna would be to parse/read
CWL workflows into the SCUFL2 model of Taverna Language.
> Running CWL workflows can be achieved by interpreting CWL Tools (which are described
in JSON) as a way to configure the Tool Activity with docker commands. 
> But this SCUFL2 reader can just represent the CWL configurations as-is.
> There's an early Java SDK for CWL parsing just made, under development at https://github.com/common-workflow-language/cwljava/

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