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From "Stian Soiland-Reyes (JIRA)" <j...@apache.org>
Subject [jira] [Created] (TAVERNA-877) SCUFL2-reader for Common Workflow Language workflows
Date Fri, 08 Jan 2016 14:45:39 GMT
Stian Soiland-Reyes created TAVERNA-877:

             Summary: SCUFL2-reader 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

Common Workflow Language

..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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