EMBL-EBI ClustalW2 (SOAP)

Created: 2010-12-06 13:16:52 Last updated: 2013-03-28 12:46:34

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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).

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Authors (1)

Titles (1)

Descriptions (1)

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
type_value	stringconstant	Value out
getResult_2	wsdl	Wsdl http://www.ebi.ac.uk/Tools/services/soap/clustalw2?wsdl Wsdl Operation getResult
getResult_2_input	xmlsplitter
getResult_2_output	xmlsplitter
type_value_1	stringconstant	Value tree
getResult_3	wsdl	Wsdl http://www.ebi.ac.uk/Tools/services/soap/clustalw2?wsdl Wsdl Operation getResult
getResult_3_input	xmlsplitter
getResult_3_output	xmlsplitter
type_value_2	stringconstant	Value aln-clustalw
Job_status_poll	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
type_value:value	getResult_input:type
getResult:parameters	getResult_output:input
getResult_2_input:output	getResult_2:parameters
run_output:jobId	getResult_2_input:jobId
type_value_1:value	getResult_2_input:type
getResult_2:parameters	getResult_2_output:input
getResult_3_input:output	getResult_3:parameters
run_output:jobId	getResult_3_input:jobId
type_value_2:value	getResult_3_input:type
getResult_3:parameters	getResult_3_output:input
run_output:jobId	Job_status_poll:JobId
getResult_3_output:output	ClustalW_alignment
getResult_2_output:output	ClustalW_guide_tree
getResult_output:output	ClustalW_output
run_output:jobId	Job_ID
Job_status_poll:Job_status	Job_status

Coordinations (3)

Controller	Target
Job_status_poll	getResult_3
Job_status_poll	getResult
Job_status_poll	getResult_2

Information Workflow Type

Taverna 2

Information Uploader

Hamish McWilliam

Information License

All versions of this Workflow are licensed under:

Apache License v2.0

Information Version 1 (of 1)

Information Credits (0)

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None

Information Attributions (1)

(Workflows/Files)

EBI_ClustalW2

Information Tags (7)

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Information Featured In Packs (1)

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Information Attributed By (2)

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Information Statistics

2758 viewings

1809 downloads

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Citations (0)

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EMBL-EBI ClustalW2 (SOAP)

Created by Hamish McWilliam on Monday 06 December 2010 13:16:52 (UTC)

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EMBL-EBI ClustalW2_SOAP (2)

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Perform a ClustalW2 alignment of protein sequences 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.

Created: 2011-01-17 | Last updated: 2013-01-30

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Attributions: EMBL-EBI ClustalW2 (SOAP) EBI_ClustalW2

EMBL-EBI ClustalW2 (SOAP)

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Wsdl

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Other workflows that use similar services (3)