Package ubic.gemma.web.controller.expression.experiment

Class ExpressionExperimentDataFetchController

java.lang.Object

ubic.gemma.web.controller.expression.experiment.ExpressionExperimentDataFetchController

@Controller
public class ExpressionExperimentDataFetchController
extends Object

For the download of data files from the browser. We can send the 'raw' data for any one quantitation type, with gene annotations, OR the 'filtered masked' matrix for the expression experiment.

Author:

pavlidis

Constructor Summary

Constructors

Constructor	Description
ExpressionExperimentDataFetchController()

Method Summary

Modifier and Type	Method	Description
void	downloadFile(String filename, javax.servlet.http.HttpServletResponse response)	Regular spring MVC request to fetch a file that already has been generated.
void	downloadMetaFile(Long eeId, Integer typeId, javax.servlet.http.HttpServletResponse response)
String	getCoExpressionDataFile(Long eeId)	AJAX Method - kicks off a job to start generating (if need be) the text based tab delimited co-expression data file
String	getDataFile(ExpressionExperimentDataFetchCommand command)	AJAX Method - kicks off a job to start generating (if need be) the text based tab delimited experiment design data file
String	getDiffExpressionDataFile(Long analysisId)	AJAX Method - kicks off a job to start generating (if need be) the text based tab delimited differential expression data file
MetaFile[]	getMetadataFiles(Long eeId)	Scans the metadata directory for any files associated with the given experiment.
File	getOutputFile(String filename)
void	setQuantitationTypeService(ubic.gemma.persistence.service.common.quantitationtype.QuantitationTypeService quantitationTypeService)

Methods inherited from class java.lang.Object

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

Constructor Detail

ExpressionExperimentDataFetchController

public ExpressionExperimentDataFetchController()

Method Detail

downloadFile

@RequestMapping(value="/getData.html",
                method={GET,HEAD})
public void downloadFile(@RequestParam("file")
                         String filename,
                         javax.servlet.http.HttpServletResponse response)
                  throws IOException

Regular spring MVC request to fetch a file that already has been generated. It is assumed that the file is in the DATA_DIR.

Throws:

IOException

downloadMetaFile

@RequestMapping(value="/getMetaData.html",
                method={GET,HEAD})
public void downloadMetaFile(@RequestParam("eeId")
                             Long eeId,
                             @RequestParam("typeId")
                             Integer typeId,
                             javax.servlet.http.HttpServletResponse response)
                      throws IOException

Throws:

IOException

getMetadataFiles

public MetaFile[] getMetadataFiles(Long eeId)
                            throws IOException

Scans the metadata directory for any files associated with the given experiment.

Parameters:

eeId - the id of the experiment to scan for the metadata for.

Returns:

an array of files available in the metadata directory for the given experiment.

Throws:

IOException

getCoExpressionDataFile

public String getCoExpressionDataFile(Long eeId)

AJAX Method - kicks off a job to start generating (if need be) the text based tab delimited co-expression data file

getDataFile

public String getDataFile(ExpressionExperimentDataFetchCommand command)

AJAX Method - kicks off a job to start generating (if need be) the text based tab delimited experiment design data file

getDiffExpressionDataFile

public String getDiffExpressionDataFile(Long analysisId)

AJAX Method - kicks off a job to start generating (if need be) the text based tab delimited differential expression data file

getOutputFile

public File getOutputFile(String filename)

setQuantitationTypeService

public void setQuantitationTypeService(ubic.gemma.persistence.service.common.quantitationtype.QuantitationTypeService quantitationTypeService)