BioQuali synchronous workflow

Created: 2009-07-06 10:00:52 Last updated: 2009-07-06 10:05:49

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BioQuali: Network Compatibility and products variation inference in a biological network.

Help page: http://genoweb2.irisa.fr/claroline/claroline/course/index.php?cid=BIOQUALI

Reference: Carito Guziolowski, Annabel Bourdé, Francois Moreews and Anne Siegel BioQuali Cytoscape plugin: analysing the global consistency of regulatory networks
BMC Genomics 2009, 10:244 doi:10.1186/1471-2164-10-244

This web service is made available on GenOuest bioinformatics platform (Rennes, France) using Opal toolkit. A list of other web-services available on GenOuest platform can be viewed here.

This workflow uses BioQuali in a synchronous way: the workflow will launch BioQuali and wait the end of the job before continuing.

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Workflow Components

Inputs (6)

Name	Description
nameGraphInput	Name of the input network file (usually something like input.net).
contentGraphInput	Content of the input network file, loaded from a file on your hard drive.
nameDataInput	Name of the input observations file (usually something like input.obs).
contentDataInput	Content of the input observations file, loaded from a file on your hard drive.
calculateCoreNetwork	Calculate core network. Set to 'true' or 'false'.
findAllInconsistentSubgraphs	Find all inconsistent subgraphs. Set to 'true' or 'false'.

Processors (5)

Name	Type	Description
inputNetworkFileXML	local	This object represent the input network file.
launchJobBlockingInputXML	local	This object represent the input data to give to BioQuali (files and options).
launchJobBlockingOutputXML	local	This object represent the output data produced by BioQuali.
inputObservationsFileXML	local	This object represent the input observations file.
launchJobBlocking	arbitrarywsdl	Same as launchJob but blocks until the remote execution is complete, and returns job outputs (as described above) as the response. This operation may only be appropriate for jobs that are not long running.

Beanshells (0)

Outputs (1)

Name	Description
result	Result of the job. It includes exit status and URL to access output files. There are other operations defined in the WSDL to retrieve output data.

Links (11)

Source	Sink
calculateCoreNetwork	launchJobBlockingInputXML:calculateCoreNetwork
contentDataInput	inputObservationsFileXML:contents
contentGraphInput	inputNetworkFileXML:contents
findAllInconsistentSubgraphs	launchJobBlockingInputXML:findAllInconsistentSubgraphs
inputNetworkFileXML:output	launchJobBlockingInputXML:inputNetworkFile
inputObservationsFileXML:output	launchJobBlockingInputXML:inputObservationsFile
launchJobBlocking:launchJobBlockingOutput	launchJobBlockingOutputXML:input
nameDataInput	inputObservationsFileXML:name
nameGraphInput	inputNetworkFileXML:name
launchJobBlockingInputXML:output	launchJobBlocking:launchJobBlockingInput
launchJobBlockingOutputXML:status	result

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Information Workflow Type

Taverna 1

Information Uploader

abretaud

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Information Version 1 (of 1)

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Information Statistics

1750 viewings

1577 downloads

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Version History

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BioQuali synchronous workflow

Created by abretaud on Monday 06 July 2009 10:00:52 (UTC)

Last edited by abretaud on Monday 06 July 2009 10:05:50 (UTC)

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Other workflows that use similar services (1)

Taverna 1

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abretaud

BioQuali asynchronous workflow (1)

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BioQuali: Network Compatibility and products variation inference in a biological network. Help page: http://genoweb2.irisa.fr/claroline/claroline/course/index.php?cid=BIOQUALI Reference: Carito Guziolowski, Annabel Bourdé, Francois Moreews and Anne Siegel BioQuali Cytoscape plugin: analysing the global consistency of regulatory networks BMC Genomics 2009, 10:244 doi:10.1186/1471-2164-10-244 This web service is made available on GenOuest bioinformatics platform (Rennes, ...

Created: 2009-07-06 | Last updated: 2009-07-06

Credits: abretaud GenOUEST Platform