Package ubic.gemma.web.services

Class DEDVfromEEIDGeneIDEndpoint

java.lang.Object

org.springframework.xml.transform.TransformerObjectSupport

org.springframework.ws.server.endpoint.AbstractDomPayloadEndpoint

ubic.gemma.web.services.AbstractGemmaEndpoint

ubic.gemma.web.services.DEDVfromEEIDGeneIDEndpoint

All Implemented Interfaces:

org.springframework.ws.server.endpoint.PayloadEndpoint

public class DEDVfromEEIDGeneIDEndpoint
extends AbstractGemmaEndpoint

Given a list Experiment IDs and a list gene IDs will return design element data vectors (DEDV), all the genes that could have been responsible for that DEDV (only needs to contain 1 of the given genes) and the Expression Experiment that the data came from. The DEDV's will be a list of white space seperated doubles that might contain NaN's for missing data. The gene's will also be a list of white space separated gene Ids. This query can be time consuming and cause a tcp/ip server timeout . The service outputs the results to a file which can be found at (file wil be name something like dedv-"gene IDs"-"Number of Experiments".xml https://gemma.msl.ubc.ca/ws/xml/

Author:

gavin, klc

Field Summary

Fields inherited from class ubic.gemma.web.services.AbstractGemmaEndpoint

DELIMITER, manualAuthenticationService, NAMESPACE_URI, REQUEST, RESPONSE

Fields inherited from class org.springframework.xml.transform.TransformerObjectSupport

logger

Constructor Summary

Constructors

Constructor	Description
DEDVfromEEIDGeneIDEndpoint()

Method Summary

Modifier and Type	Method	Description
protected Element	invokeInternal(Element requestElement, Document document)	Reads the given requestElement, and sends a the response back.
void	setExpressionExperimentService(ExpressionExperimentService expressionExperimentService)
void	setProcessedExpressionDataVectorService(ProcessedExpressionDataVectorService processedExpressionDataVectorService)

Methods inherited from class ubic.gemma.web.services.AbstractGemmaEndpoint

authenticate, buildBadResponse, buildWrapper, encode, getArrayValues, getLastSingleNodeValue, getNodeValue, getOptionalNodeValue, getSingleNodeValue, readReport, readReport, readReport, setLocalName, setManualAuthenticationService, writeReport

Methods inherited from class org.springframework.ws.server.endpoint.AbstractDomPayloadEndpoint

createDocumentBuilder, createDocumentBuilderFactory, getDocumentElement, invoke, setAlwaysTransform, setExpandEntityReferences, setNamespaceAware, setValidating

Methods inherited from class org.springframework.xml.transform.TransformerObjectSupport

createTransformer, getTransformerFactory, newTransformerFactory, setTransformerFactoryClass, transform

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

DEDVfromEEIDGeneIDEndpoint

public DEDVfromEEIDGeneIDEndpoint()

Method Detail

setExpressionExperimentService

public void setExpressionExperimentService(ExpressionExperimentService expressionExperimentService)

setProcessedExpressionDataVectorService

public void setProcessedExpressionDataVectorService(ProcessedExpressionDataVectorService processedExpressionDataVectorService)

invokeInternal

protected Element invokeInternal(Element requestElement,
                                 Document document)

Reads the given requestElement, and sends a the response back.

Specified by:

invokeInternal in class org.springframework.ws.server.endpoint.AbstractDomPayloadEndpoint

Parameters:

requestElement - the contents of the SOAP message as DOM elements

document - a DOM document to be used for constructing Nodes

Returns:

the response element