About | Mailing List | Publications

Give us Feedback |

Invite

Home
»
Workflows
»
blastp using the MRS system

Workflow Entry: blastp using the MRS system

Created at: 28/11/08 @ 15:13:32 Last updated: 28/11/08 @ 15:34:19

Version 1 (of 1)

Version created on: 28/11/08 @ 15:13:32 by: Bas Vroling | Revision comments Expand

Last edited on: 28/11/08 @ 15:34:20 by: Bas Vroling

Title: blastp using the MRS system

Type: Taverna 1

Preview

(Click on the image to get the full size)

Download Scalable Diagram (SVG)

Description

This blastp workflow uses the blast service of MRS (http://mrs.cmbi.ru.nl). Inputs are a sequence (only amino acids, not a fasta sequence) and a database name. Valid database names that can be used are "sprot", "uniprot", "trembl", "pdb", "refseq", "ipi" and "gpcrdb". Output is returned in XML.

Download

Download Workflow File/Package (SCUFL)

Run

Run this Workflow in the Taverna Workbench...

Option 1:

Launch in Taverna

Note: you need to have both the WHIP Launcher and the Taverna myExperiment/WHIP plugin installed on your machine for this to work. See here for information.

Option 2:

Copy and paste this link into File > 'Open workflow location...'
http://www.myexperiment.org/workflows/581/download?version=1
[ More Info Expand ]

Workflow Components

Inputs (2)

Name	Description
sequence
db

Processors (7)

Name	Type	Description
filterHits	local
castToXml	beanshell
blastJobResultOut	local
blastResultParametersIn	local
BlastJobResult	arbitrarywsdl	See the Service entry for this web service.
mrs_blast	workflow
mrs_blast_status	workflow

Beanshells (2)

Name	Description	Inputs	Outputs
checkStatus		status	isComplete
castToXml		input	output

Outputs (1)

Name	Description
hits

Links (9)

Source	Sink
BlastJobResult:parameters	blastJobResultOut:input
BlastJobResult:parameters	filterHits:xml-text
blastResultParametersIn:output	BlastJobResult:parameters
db	mrs_blast:db
filterHits:nodelistAsXML	castToXml:input
mrs_blast:jobId	blastResultParametersIn:jobId
mrs_blast:jobId	mrs_blast_status:jobId
sequence	mrs_blast:sequence
castToXml:output	hits

Coordinations (1)

Controller	Target
mrs_blast_status	BlastJobResult

Information Workflow Type

Taverna 1

Information Original Uploader

Bas Vroling

Information License

All versions of this Workflow are licensed under:

Information Credits (1)

(People/Groups)

Bas Vroling

Information Attributions (0)

(Workflows/Files)

None

Information Tags (4)

Original Uploader tags

Log in to add Tags

Information Shared with Groups (0)

None

Information Featured In Packs (0)

None

Log in to add to one of your Packs

Information Ratings (0)

Current:

0.0 / 5

(0 ratings)

Log in to rate and see breakdown of ratings

Information Attributed By (0)

(Workflows/Files)

None

Information Favourited By (0)

No one

Information Statistics

445 viewings

698 downloads

[ see breakdown ]

Citations (0)

None

Version History

Earliest Version:
[1] - blastp using the MRS system

Created on: Friday 28 November 2008 @ 15:13:32 (GMT)

Created by: Bas Vroling

Last edited on: Friday 28 November 2008 @ 15:34:20 (GMT)

Last edited by: Bas Vroling

Revision comments:

None

This Workflow only has one version.

Reviews (0)

No reviews yet

Be the first to review!

Comments (0)

View Timeline

No comments yet

Log in to make a comment

Other workflows that use similar services (1)

Taverna 2

Original Uploader

Bas Vroling

blastp using the MRS system (v1)

Created: 10/11/09 @ 14:20:40

Credits: Bas Vroling

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This blastp workflow uses the blast service of MRS (http://mrs.cmbi.ru.nl). Inputs are a sequence (only amino acids, not a fasta sequence) and a database. Databases that can be used are "sprot", "uniprot", "trembl", "pdb", "refseq", "ipi" and "gpcrdb".

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

Viewed: 41 times | Downloaded: 17 times

This Workflow has no tags!