Workflow Entry: Using CQL to query protein sequence data

Created at: 05/12/08 @ 22:03:03 Last updated: 14/07/09 @ 19:32:17

Version 1 (of 1)

Version created on: 05/12/08 @ 22:03:03 by: Wei Tan | Revision comments Expand

Last edited on: 14/07/09 @ 19:32:18 by: Wei Tan

Title: Using CQL to query protein sequence data

Type: Taverna 1

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Description

To query protein sequence infomation out of 3 caGrid data services: caBIO, CPAS and GridPIR.

Scientific value

To query protein sequence information out of 3 caGrid data services: caBIO, CPAS and GridPIR.
To analyze a protein sequence from different data sources.

Steps

Querying CPAS and get the id, name, value of the sequence.
Querying caBIO and GridPIR using the id or name obtained from CPAS.

Download

Download Workflow File/Package (SCUFL)

Run

Run this Workflow in the Taverna Workbench...

Option 1:

Launch in Taverna

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Option 2:

Copy and paste this link into File > 'Open workflow location...'
http://www.myexperiment.org/workflows/600/download?version=1
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Workflow Components

Inputs (0)

Processors (12)

Name	Type	Description
parametersXML	local
Beanshell_1	beanshell
parametersXML1	local
cqlQueryXML1	local
parametersXML2	local
Beanshell_2	beanshell
parametersXML3	local
cqlQueryXML	local
cqlQueryXML2	local
CPASQuery	arbitrarywsdl
GridPIRQuery	arbitrarywsdl
caBIOQuery	arbitrarywsdl

Beanshells (2)

Name	Description	Inputs	Outputs
Beanshell_1		input	output
Beanshell_2		input	output

Outputs (3)

Name	Description
CPAS_Result
GridPIR_Result
caBIO_Result

Links (14)

Source	Sink
Beanshell_1:output	cqlQueryXML1:CQLQuery
Beanshell_2:output	cqlQueryXML2:CQLQuery
CPASQuery:parameters	parametersXML2:input
cqlQueryXML1:output	parametersXML1:cqlQuery
cqlQueryXML2:output	parametersXML3:cqlQuery
cqlQueryXML:output	parametersXML:cqlQuery
CPASQuery:parameters	CPAS_Result
parametersXML1:output	GridPIRQuery:parameters
parametersXML2:CQLQueryResultCollection	Beanshell_1:input
parametersXML2:CQLQueryResultCollection	Beanshell_2:input
parametersXML3:output	caBIOQuery:parameters
parametersXML:output	CPASQuery:parameters
GridPIRQuery:parameters	GridPIR_Result
caBIOQuery:parameters	caBIO_Result