EMBL-EBI ClustalW2_SOAP

Created: 2011-01-17 16:48:40 Last updated: 2013-01-30 12:57:29

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Perform a ClustalW2 alignment using the EMBL-EBIâ€™s ClustalW2 (SOAP) service (see http://www.ebi.ac.uk/Tools/webservices/services/msa/clustalw2_soap). This workflow uses the new EBI services, which are asynchronous and require looping over the nested workflow (Status) until the workflow has finished. Many of the EBI services now work in this way, so you can use this workflow as an example of the invocation pattern and looping configuration.

Perform a ClustalW2 alignment using the EMBL-EBIâ€™s ClustalW2 (SOAP) service (see http://www.ebi.ac.uk/Tools/webservices/services/msa/clustalw2_soap).

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Workflow Components

Authors (3)

Titles (2)

Descriptions (2)

Dependencies (0)

Inputs (2)

Name	Description
Email_address	Valid e-amil address for job submssion to service.
Sequences	Set of sequences to align. These can be in any common sequence format, although fasta format is recommended, and should be input as a single value (i.e. not a list).

Processors (17)

Name	Type	Description
run	wsdl	Wsdl http://www.ebi.ac.uk/Tools/services/soap/clustalw2?wsdl Wsdl Operation run
run_input	xmlsplitter
run_output	xmlsplitter
run_input_2	xmlsplitter
getResult	wsdl	Wsdl http://www.ebi.ac.uk/Tools/services/soap/clustalw2?wsdl Wsdl Operation getResult
getResult_input	xmlsplitter
getResult_output	xmlsplitter
out	stringconstant	Value out
getResult_guideTree	wsdl	Wsdl http://www.ebi.ac.uk/Tools/services/soap/clustalw2?wsdl Wsdl Operation getResult
getResult_tree_input	xmlsplitter
getResult_tree_output	xmlsplitter
tree	stringconstant	Value tree
getResult_alignment	wsdl	Wsdl http://www.ebi.ac.uk/Tools/services/soap/clustalw2?wsdl Wsdl Operation getResult
getResult_align_input	xmlsplitter
getResult_align_output	xmlsplitter
aln	stringconstant	Value aln-clustalw
status	workflow

Beanshells (0)

Outputs (5)

Name	Description
ClustalW_alignment	The sequence alignment. In Clustal format.
ClustalW_guide_tree	Guide tree generated during the alignment. Please note this is not a phylogentic tree and does not reflect the final alignment obtained.
ClustalW_output	Progress output from ClustalW. Useful when diagnosing problems.
Job_ID	Job identifier.
Job_status	Job status.

Datalinks (23)

Source	Sink
run_input:output	run:parameters
Email_address	run_input:email
run_input_2:output	run_input:parameters
run:parameters	run_output:input
Sequences	run_input_2:sequence
getResult_input:output	getResult:parameters
run_output:jobId	getResult_input:jobId
out:value	getResult_input:type
getResult:parameters	getResult_output:input
getResult_tree_input:output	getResult_guideTree:parameters
run_output:jobId	getResult_tree_input:jobId
tree:value	getResult_tree_input:type
getResult_guideTree:parameters	getResult_tree_output:input
getResult_align_input:output	getResult_alignment:parameters
run_output:jobId	getResult_align_input:jobId
aln:value	getResult_align_input:type
getResult_alignment:parameters	getResult_align_output:input
run_output:jobId	status:JobId
getResult_align_output:output	ClustalW_alignment
getResult_tree_output:output	ClustalW_guide_tree
getResult_output:output	ClustalW_output
run_output:jobId	Job_ID
status:Job_status	Job_status

Coordinations (3)

Controller	Target
status	getResult_tree_input
status	getResult_input
status	getResult_align_input

Information Workflow Type

Taverna 2

Information Uploader

Katy Wolstencroft

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Information Version 1 (earliest) (of 2)

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Information Statistics

2733 viewings

1716 downloads

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Version History

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EMBL-EBI ClustalW2_SOAP

Created by Katy Wolstencroft on Monday 17 January 2011 16:48:40 (UTC)
EMBL-EBI ClustalW2_SOAP

Created by Katy Wolstencroft on Wednesday 30 January 2013 12:57:28 (UTC)

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Attributions: EMBL-EBI ClustalW2 (SOAP)

EMBL-EBI ClustalW2_SOAP

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