EBI_InterProScan

Created: 2008-10-26 20:33:34 Last updated: 2011-04-01 08:52:28

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Perform an InterProScan analysis of a protein sequence using the EBIâ€™s WSInterProScan service (see http://www.ebi.ac.uk/Tools/webservices/services/interproscan). The input sequence to use and the user e-mail address are inputs, the other parameters for the analysis (see Job_params) are allowed to default.

InterProScan searches a protein sequence against the protein family and domain signature databases integrated into InterPro (see http://www.ebi.ac.uk/interpro/). InterProScan returns a set of InterPro and InterPro member matches with your sequence, along with GO term assignments.

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Workflow Components

Inputs (2)

Name	Description
Email_address	User e-mail address
Sequence_or_ID	Input protein sequence for analysis. This can either be the actual sequence (fasta format recommended) or a database identifier in database:identifer format (e.g. uniprot:wap_rat).

Processors (9)

Name	Type	Description
runInterProScan	arbitrarywsdl	Submit the InterProScan job.
Get_text_result	arbitrarywsdl	Get the plain text format result.
Get_XML_result	arbitrarywsdl	Get the XML format result.
Unpack_text_result	local	Unpack byte[] version of result into a string.
Unpack_XML_result	local	Unpack byte[] version of result into a string.
Content_list	local	Wrap input data in a list.
Job_params	local	InterProScan job parameters.
Input_data	local	Populate input data structure with input sequence and data type.
EBI_InterProScan_poll_job	workflow	Wait for the job to complete.

Beanshells (1)

Name	Description	Inputs	Outputs
Is_done	Map status codes into true/false is done flag.	job_status	is_done

Outputs (3)

Name	Description
InterProScan_text_result	InterProScan result in tab delimited plain text format.
InterProScan_XML_result	InterProScan result in XML format.
Job_ID	EBI job identifier.

Links (13)

Source	Sink
Content_list:output	runInterProScan:content
Email_address	Job_params:email
Get_XML_result:output	Unpack_XML_result:bytes
Get_text_result:output	Unpack_text_result:bytes
Input_data:output	Content_list:WSArrayofData
Job_params:output	runInterProScan:params
Sequence_or_ID	Input_data:content
runInterProScan:jobid	EBI_InterProScan_poll_job:Job_ID
Unpack_XML_result:string	InterProScan_XML_result
Unpack_text_result:string	InterProScan_text_result
runInterProScan:jobid	Get_XML_result:jobid
runInterProScan:jobid	Get_text_result:jobid
runInterProScan:jobid	Job_ID

Coordinations (2)

Controller	Target
EBI_InterProScan_poll_job	Get_text_result
EBI_InterProScan_poll_job	Get_XML_result

Information Workflow Type

Taverna 1

Information Uploader

Hamish McWilliam

Information License

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Information Version 1 (earliest) (of 3)

Information Credits (1)

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Hamish McWilliam

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Information Tags (10)

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Information Featured In Packs (1)

EMBL-EBI Web Services (retired)

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Information Attributed By (10)

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Information Statistics

14646 viewings

7382 downloads

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Version History

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EBI_InterProScan

Created by Hamish McWilliam on Saturday 31 May 2008 11:38:57 (UTC)

Last edited by Hamish McWilliam on Saturday 31 May 2008 11:38:58 (UTC)
EBI_InterProScan

Created by Hamish McWilliam on Saturday 31 May 2008 11:38:57 (UTC)

Last edited by Hamish McWilliam on Wednesday 25 June 2008 06:30:59 (UTC)

Revision comment:

Add plain text GFF format output and update some of the meta-data.
EBI_InterProScan

Created by Hamish McWilliam on Sunday 26 October 2008 20:33:34 (UTC)

Last edited by Hamish McWilliam on Friday 01 April 2011 08:52:28 (UTC)

Revision comment:

Update for changes to operation output names in web service defintion.

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Comments (1)

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Franck Tanoh	Monday 22 September 2008 16:55:20 (UTC)
	Service " Get_XML_result" doesn't seem to run as a result I was unable to load the workfow in Taverna.

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Note: the WSInterProScan web service used by this workflow is no longer available haveing been replaced by the EMBL-EBI's InterProScan (REST) (http://www.ebi.ac.uk/Tools/webservices/services/pfa/iprscan_rest) and InterProScan (SOAP) (http://www.ebi.ac.uk/Tools/webservices/services/pfa/iprscan_soap) web services. Thus the workflow described here no longer works, see the alternative workflows for the InterProScan (SOAP) service for workflows which use the new services. Run an InterProScan anal...

Created: 2008-05-31 | Last updated: 2011-04-01

Credits: Hamish McWilliam

Attributions: EBI_InterProScan