Package ubic.gemma.web.controller.expression.arrayDesign

Class ArrayDesignController

java.lang.Object

ubic.gemma.web.controller.expression.arrayDesign.ArrayDesignController

@Controller
@RequestMapping("/arrays")
public class ArrayDesignController
extends Object

Note: do not use parametrized collections as parameters for ajax methods in this class! Type information is lost during proxy creation so DWR can't figure out what type of collection the method should take. See bug 2756. Use arrays instead.

Author:

keshav

Constructor Summary

Constructors

Constructor	Description
ArrayDesignController()

Method Summary

Modifier and Type	Method	Description
String	addAlternateName(Long arrayDesignId, String alternateName)
JsonReaderResponse<ArrayDesignValueObject>	browse(ListBatchCommand batch, Long[] ids, boolean showMerged, boolean showOrphans)
org.springframework.web.servlet.ModelAndView	delete(Long id)
void	downloadAnnotationFile(Long arrayDesignId, String fileType, javax.servlet.http.HttpServletRequest request, javax.servlet.http.HttpServletResponse response)
org.springframework.web.servlet.ModelAndView	filter(String filter)
org.springframework.web.servlet.ModelAndView	generateSummary(Long id)
Collection<ArrayDesignValueObject>	getArrayDesigns(Long[] arrayDesignIds, boolean showMergees, boolean showOrphans)
Collection<CompositeSequenceMapValueObject>	getCsSummaries(EntityDelegator<ArrayDesign> ed)
Collection<CompositeSequenceMapValueObject>	getDesignSummaries(ArrayDesign arrayDesign)
ArrayDesignValueObjectExt	getDetails(Long id)
Map<String,String>	getReportHtml(EntityDelegator<ArrayDesign> ed)
String	getSummaryForArrayDesign(Long id)
Collection<ArrayDesignValueObject>	loadArrayDesignsForShowAll(Long[] arrayDesignIds)
ArrayDesignValueObject	loadArrayDesignsSummary()
String	remove(EntityDelegator<ArrayDesign> ed)
org.springframework.web.servlet.ModelAndView	showAllArrayDesigns()
org.springframework.web.servlet.ModelAndView	showArrayDesign(Long id)
org.springframework.web.servlet.ModelAndView	showArrayDesignByName(String name)
org.springframework.web.servlet.ModelAndView	showCompositeSequences(Long id)
org.springframework.web.servlet.ModelAndView	showExpressionExperiments(Long id)
String	updateReport(EntityDelegator<ArrayDesign> ed)
String	updateReportById(Long id)

Methods inherited from class java.lang.Object

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

Constructor Details

ArrayDesignController

public ArrayDesignController()

Method Details

addAlternateName

public String addAlternateName(Long arrayDesignId,
 String alternateName)

browse

public JsonReaderResponse<ArrayDesignValueObject> browse(ListBatchCommand batch,
 Long[] ids,
 boolean showMerged,
 boolean showOrphans)

delete

@RequestMapping(value="/deleteArrayDesign.html",
                method=POST)
public org.springframework.web.servlet.ModelAndView delete(@RequestParam("id")
 Long id)

downloadAnnotationFile

@RequestMapping(value="/downloadAnnotationFile.html",
                method={GET,HEAD})
public void downloadAnnotationFile(@RequestParam("id")
 Long arrayDesignId,
 @RequestParam(value="fileType",required=false)
 String fileType,
 javax.servlet.http.HttpServletRequest request,
 javax.servlet.http.HttpServletResponse response)
                            throws IOException

Throws:

IOException

filter

@RequestMapping(value="/filterArrayDesigns.html",
                method={GET,HEAD})
public org.springframework.web.servlet.ModelAndView filter(@RequestParam("filter")
 String filter)

generateSummary

@RequestMapping(value="/generateArrayDesignSummary.html",
                method={GET,HEAD})
public org.springframework.web.servlet.ModelAndView generateSummary(@RequestParam(value="id",required=false)
 Long id)

getArrayDesigns

public Collection<ArrayDesignValueObject> getArrayDesigns(Long[] arrayDesignIds,
 boolean showMergees,
 boolean showOrphans)

getCsSummaries

public Collection<CompositeSequenceMapValueObject> getCsSummaries(EntityDelegator<ArrayDesign> ed)

getDesignSummaries

public Collection<CompositeSequenceMapValueObject> getDesignSummaries(ArrayDesign arrayDesign)

getDetails

public ArrayDesignValueObjectExt getDetails(Long id)

getReportHtml

public Map<String,String> getReportHtml(EntityDelegator<ArrayDesign> ed)

getSummaryForArrayDesign

public String getSummaryForArrayDesign(Long id)

loadArrayDesignsForShowAll

public Collection<ArrayDesignValueObject> loadArrayDesignsForShowAll(Long[] arrayDesignIds)

loadArrayDesignsSummary

public ArrayDesignValueObject loadArrayDesignsSummary()

remove

public String remove(EntityDelegator<ArrayDesign> ed)

showAllArrayDesigns

@RequestMapping(value="/showAllArrayDesigns.html",
                method={GET,HEAD})
public org.springframework.web.servlet.ModelAndView showAllArrayDesigns()

showArrayDesign

@RequestMapping(value={"/showArrayDesign.html","/"},
                params="id",
                method={GET,HEAD})
public org.springframework.web.servlet.ModelAndView showArrayDesign(@RequestParam("id")
 Long id)

showArrayDesignByName

@RequestMapping(value={"/showArrayDesign.html","/"},
                params="name",
                method={GET,HEAD})
public org.springframework.web.servlet.ModelAndView showArrayDesignByName(@RequestParam("name")
 String name)

showCompositeSequences

@RequestMapping(value="/showCompositeSequenceSummary.html",
                method={GET,HEAD})
public org.springframework.web.servlet.ModelAndView showCompositeSequences(@RequestParam("id")
 Long id)

showExpressionExperiments

@RequestMapping(value="/showExpressionExperiments.html",
                method={GET,HEAD})
public org.springframework.web.servlet.ModelAndView showExpressionExperiments(@RequestParam("id")
 Long id)

updateReport

public String updateReport(EntityDelegator<ArrayDesign> ed)

updateReportById

public String updateReportById(Long id)