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NCBI BLAST (SOAP)

Workflow Entry: NCBI BLAST (SOAP)

Created at: 29/11/10 @ 20:03:13 Last updated: 28/03/13 @ 12:44:56

Version 1 (of 1)

Version created on: 29/11/10 @ 20:03:13 by: Hamish McWilliam

Title: NCBI BLAST (SOAP)

Type: Taverna 2

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Description

Perform a BLAST search using the EMBL-EBIâ€™s NCBI BLAST (SOAP) service (see http://www.ebi.ac.uk/Tools/webservices/services/sss/ncbi_blast_soap). The query sequence, database to search and BLAST program to use are inputs, the other parameters for the search are allowed to default.

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Workflow Components

Authors (1)

Titles (1)

Descriptions (1)

Dependencies (0)

Inputs (5)

Name	Description
Email	Valid e-mail address.
Sequence	Query sequence. Either sequence data in any common format or an entry identifier in DB:ID format.
Databases	List of databases to search.
Sequence_type	Query sequence type.
Program	NCBI BLAST program to use to perform the search.

Processors (9)

Name	Type	Description
run	wsdl	See the Service entry for this web service.
run_input	xmlsplitter
run_output	xmlsplitter
run_input_2	xmlsplitter
Workflow2	workflow
getResult	wsdl	See the Service entry for this web service.
getResult_input	xmlsplitter
getResult_output	xmlsplitter
type_value	stringconstant

Beanshells (0)

Outputs (3)

Name	Description
JobId	NCBI BLAST (SOAP) web service at EMBL-EBI job identifier.
Job_Status	NCBI BLAST job status.
Result	NCBI BLAST result.

Datalinks (16)

Source	Sink
run_input:output	run:parameters
run_input_2:output	run_input:parameters
Email	run_input:email
run:parameters	run_output:input
Sequence	run_input_2:sequence
Databases	run_input_2:database
Sequence_type	run_input_2:stype
Program	run_input_2:program
run_output:jobId	Workflow2:JobId
getResult_input:output	getResult:parameters
run_output:jobId	getResult_input:jobId
type_value:value	getResult_input:type
getResult:parameters	getResult_output:input
run_output:jobId	JobId
Workflow2:Status	Job_Status
getResult_output:output	Result

Coordinations (1)

Controller	Target
Workflow2	getResult_input

Information Workflow Type

Taverna 2

Information Original Uploader

Hamish McWilliam

Information License

All versions of this Workflow are licensed under:

Apache License v2.0

Information Credits (0)

(People/Groups)

None

Information Attributions (2)

(Workflows/Files)

Information Tags (7)

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Information Shared with Groups (0)

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Information Featured In Packs (1)

EMBL-EBI Web Services

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Information Ratings (0)

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Information Attributed By (1)

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NCBI BLAST (SOAP)

Information Favourited By (0)

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Information Statistics

464 viewings

596 downloads

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Citations (0)

None

Version History

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NCBI BLAST (SOAP)

Created by Hamish McWilliam on Monday 29 November 2010 @ 20:03:13 (UTC)

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Taverna 1

Original Uploader

Hamish McWilliam

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NCBI BLAST (SOAP) (1)

Created: 29/11/10 @ 20:46:58 | Last updated: 28/03/13 @ 12:45:26

Credits: Hamish McWilliam

Attributions: EBI_NCBI_BLAST NCBI BLAST (SOAP)

License: Apache License v2.0

Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 55 times | Downloaded: 42 times

Tags (7):

Taverna 2

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Blast Report from ID (1)

Created: 07/04/11 @ 22:28:28 | Last updated: 07/04/11 @ 22:39:44

Credits: Hectorj2f

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This workflow retrieves a fasta sequence or blast report from an id. Firstly, given some inputs (e.g. ids:EDL10223.1, format:fasta, style:default and db:emblcds), it returns the sequence in fasta format associated to those inputs using the EBI's WSDbfetch web service (see http://www.ebi.ac.uk/Tools/webservices/services/dbfetch). Next, we obtain a Blast report from this fasta sequence and some others parameters. The final result in that case corresponds with the same fasta sequence introduced...