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From "Stian Soiland-Reyes (JIRA)" <>
Subject [jira] [Commented] (COMDEV-120) Taverna: Language command line tool
Date Wed, 11 Mar 2015 11:45:45 GMT


Stian Soiland-Reyes commented on COMDEV-120:

(log: Discussions with Menaka continued on dev@taverna -

> Taverna: Language command line tool
> -----------------------------------
>                 Key: COMDEV-120
>                 URL:
>             Project: Community Development
>          Issue Type: Bug
>         Environment: Java, Maven
>            Reporter: Stian Soiland-Reyes
>              Labels: gsoc, gsoc2015, java, mentor
> Project: Apache Taverna (incubating)
> Mentor: Stian Soiland-Reyes <>
> Apache Taverna Language - - is
a set of Java APIs for managing and converting Taverna workflow definitions and workflow run
data bundles.  It is a part of the Apache Taverna workflow system - but is meant to be used
outside Taverna workflow system, and therefore does not require the full OSGi plugin system
of Taverna.
> Several simple demonstrator/example prototypes for a command line tool over these has
been done, e.g. 
> but what is needed is a single command line tool that is production ready, and ideally
available as an executable standalone jar (As in the wfdesc example).
> This proposed GSOC project is to formalize the command line interface for Taverna Language
so that it can achieve some of the below:
> a) In collaboration with dev@taverna and the mentor, define command line options for
workflow conversions and inspection
> b) Find and use an appropriate command line parser library
> c) --help
> d) Basic error handling (e.g. file not found)
> e) Batch processing - e.g. recursive conversions
> f) Arguments for choosing input and output formats
> g) Unit and Integration Tests for the above (ideally through Maven)
> The project can be extended by exposing other parts of the API that don't currently have
a command line equivalent, e.g.
> h) Workflow validation
> i) Workflow statistics (number of processors, links, etc)
> Documentation of command line options and example usage should be provided.
> The command line tool should work on Linux, OS X and Windows.
> This proposed new command line tool is separate from the existing executeworkflow command
line tool 
> .. but this proposal could also be extended to include updates of executeworklow to cover
new features introduced in Taverna 3, e.g.
> to do logging of workflow activity, moving options to configuration files, improve (shrink!)
-help etc.
> Your command line tool would ideally be added to the Apache Taverna Language release,
so you would be a part of the Apache Taverna developer community
which will be able to give feedback, testing and guidance for this GSOC project and beyond.
> Prospective students are encouraged to subscribe to dev@taverna mailing list and discuss
their proposal in detail together with he Apache Taverna community -

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