EBI_NCBI_BLAST_with_prompts

Created: 2008-05-31 08:40:29 Last updated: 2010-12-06 10:55:09

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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

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Taverna 1

Information Uploader

Hamish McWilliam

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Hamish McWilliam

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EBI_NCBI_BLAST

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Multi sequences NCBI BLAST

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3157 viewings

2503 downloads

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EBI_NCBI_BLAST_with_prompts

Created by Hamish McWilliam on Saturday 31 May 2008 08:40:29 (UTC)

Last edited by Hamish McWilliam on Monday 06 December 2010 10:55:09 (UTC)

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EBI_NCBI_BLAST (1)

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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...

Created: 2008-05-31 | Last updated: 2010-12-06

Credits: Hamish McWilliam