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EBI_NCBI_BLAST_with_prompts

Workflow Entry: EBI_NCBI_BLAST_with_prompts

Created at: 31/05/08 @ 08:40:29 Last updated: 06/12/10 @ 10:55:09

Version 1 (of 1)

Version created on: 31/05/08 @ 08:40:29 by: Hamish McWilliam | Revision comments Expand

Last edited on: 06/12/10 @ 10:55:09 by: Hamish McWilliam

Title: EBI_NCBI_BLAST_with_prompts

Type: Taverna 1

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Description

Run a BLAST analysis using the EBI’s WSNCBIBlast service (see http://www.ebi.ac.uk/Tools/webservices/services/ncbiblast). This workflow wraps the EBI_NCBI_BLAST workflow to provide a basic user interface which prompts for the required inputs: sequence, database, BLAST program and user e-mail. Other parameters (e.g. matrix, sort, gap penalties, etc.) are allowed to default.

Note: the WSNCBIBlast service used by this workflow is deprecated as of 21st September 2010 and should not be used in any new development. This service is will be retired during 2011. EBI's replacement NCBI BLAST services (REST or SOAP) should be used instead.

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Workflow Components

Inputs (0)

Processors (7)

Name	Type	Description
EBI_NCBI_BLAST	workflow	Run an NCBI BLAST job using the EBI's WSNCBIBlast service (see http://www.ebi.ac.uk/Tools/webservices/services/ncbiblast).
Make_database_list	local	List of database names for select.
Make_program_list	local	List of programs for select.
Ask_for_email	local	Ask for user's e-mail address.
Ask_for_sequence	local	Ask for query sequence, either as sequence or as a database:identifer entry Id.
Select_database	local	Select the database to search.
Select_program	local	Select the program to perform the search.

Beanshells (1)

Name	Description	Inputs	Outputs
Is_done	Convert job status to true/false.	job_status	is_done

Outputs (1)

Name	Description
NCBI_BLAST_report

Links (7)

Source	Sink
Ask_for_email:answer	EBI_NCBI_BLAST:Email_address
Ask_for_sequence:answer	EBI_NCBI_BLAST:Sequence_or_ID
Make_database_list:split	Select_database:valueList
Make_program_list:split	Select_program:valueList
Select_database:answer	EBI_NCBI_BLAST:Search_database
Select_program:answer	EBI_NCBI_BLAST:BLAST_program
EBI_NCBI_BLAST:Text_result	NCBI_BLAST_report

Coordinations (0)

Information Workflow Type

Taverna 1

Information Original Uploader

Hamish McWilliam

Information License

All versions of this Workflow are licensed under:

Information Credits (1)

(People/Groups)

Hamish McWilliam

Information Attributions (1)

(Workflows/Files)

EBI_NCBI_BLAST

Information Tags (7)

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Information Attributed By (1)

(Workflows/Files)

Multi sequences NCBI BLAST

Information Favourited By (0)

No one

Information Statistics

1045 viewings

877 downloads

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Citations (0)

None

Version History

Earliest Version:
[1] - EBI_NCBI_BLAST_with_prompts

Created on: Saturday 31 May 2008 @ 08:40:29 (GMT)

Created by: Hamish McWilliam

Last edited on: Monday 06 December 2010 @ 10:55:09 (GMT)

Last edited by: Hamish McWilliam

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Only the first 2 workflows that use similar services are shown. View all workflows that use these services.

Taverna 1

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Hong Chang Bum

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Created: 03/10/07 @ 18:36:22

License: Creative Commons Attribution-No Derivative Works 3.0 Unported License

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Viewed: 243 times | Downloaded: 86 times

Tags (3):

View

Download (v2)

Taverna 1

Original Uploader

Hamish McWilliam

EBI_NCBI_BLAST (v1)

Created: 31/05/08 @ 08:38:46 | Last updated: 06/12/10 @ 10:54:16

Credits: Hamish McWilliam

License: Creative Commons Attribution 3.0 Unported License

Perform a BLAST search using the EBI’s WSNCBIBlast service (see http://www.ebi.ac.uk/Tools/webservices/services/ncbiblast). The query sequence, database to search and BLAST program to use are inputs, the other parameters for the search (see Job_params) are allowed to default. Note: the WSNCBIBlast service used by this workflow is deprecated as of 21st September 2010 and should not be used in any new development. This service is will be retired during 2011. EBI's replacement NCBI BLA...

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

Viewed: 297 times | Downloaded: 149 times

Tags (6):