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Tag: localworker
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Pack Taverna localworker example pack


Created: 2008-09-27 17:57:39 | Last updated: 2012-03-05 11:33:29

A pack of examples of the calling of Taverna's localworkers. The example workflows make extensive use of the default value mechanism for associating a value with a port of a service.  An alternative set of workflows that use string constants to make the values more explicit is under development.

103 items in this pack

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Workflow Analysing workflows (3)

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This workflows analyses workflows stored at the myExperiment site. It is used in the paper submitted to the Workshop on Scientific Workflow 2009. The workflow shows the task usage in the Taverna workflows stored at the myExperiment site The amount of services used The amount of local processors used The amount of scripting tasks The amount of sub workflows Furthermore it classifies the local services based on their intended function. The workflow has two inputs: ...

Created: 2009-05-06 | Last updated: 2009-05-06

Credits: User Wassinki User Pieter Neerincx User Katy Wolstencroft User Marco Roos

Workflow Execute cmd line app - unix - /bin/ls -R o... (1)

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Note that this workflow only works on Unix systems. The get_temporary_directory beanshell returns the path to the directory in which temporary files are held. This value is passed to the create_and_populate_list beanshell which creates a list of '-R' and the path. The resultant list is passed to the args port of the Execute_cmd_line_app service. The command port of that service has been defaulted to '/bin/ls'. The execute_cmd_line_app service runs the /bin/ls -R command on the temporary ...

Created: 2008-09-27

Credits: User Alan Williams

Workflow Execute cmd line app - unix - /bin/ls of t... (1)

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Note that this workflow only works on Unix systems. The get_temporary_directory beanshell returns the path to the directory in which temporary files are held. This value is passed to the args port of the execute_cmd_line_app service. The command port of that service has been defaulted to '/bin/ls'. The execute_cmd_line_app service runs the /bin/ls command on the temporary directory. The result is passed to its result port and then to the out port of the workflow.

Created: 2008-09-27

Credits: User Alan Williams

Workflow Extract elements from a list - single elem... (1)

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The extract_elements_from_a_list is passed the list ['a','b','c','d','e']. The fromIndex is 2 and the toIndex is 3, so the service outputs the single element list ['c'].

Created: 2008-09-29

Credits: User Alan Williams

Workflow Extract elements from a list - full extrac... (1)

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The extract_elements_from_a_list is passed the list ['a','b','c','d','e']. The fromIndex is 0 and the toIndex is 5, so the service outputs an identical list.

Created: 2008-09-29

Credits: User Alan Williams

Workflow Test always fails - no parameters (1)

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The test always fails service generates a service failure when no parameter values are supplied.

Created: 2008-09-27

Credits: User Alan Williams

Workflow Reverse complement DNA (1)

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The Reverse Complement DNA service takes the DNA sequence, here defaulted to 'gatcctccat' and outputs the corresponding reverse complement sequence, in this example, 'atggaggatc'.

Created: 2008-09-27

Credits: User Alan Williams

Workflow Read GenBank file (1)

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The Get_web_page_from_URL downloads a file from myExperiment that contains GenBank data. That data is then saved to a temporary file generated by the create_and_populate_temporary_file beanshell. The path to the temporary file is then passed to the Read_GenBank_file service. That service reads the file and converts the GenBank data into Agave format. The result is then sent to the workflow's out port.

Created: 2008-09-27

Credits: User Alan Williams

Workflow Fail if false - false value (1)

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The fail if true service throws an exception if given the value 'false'.

Created: 2008-09-27

Credits: User Alan Williams

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