All Known Implementing Classes:

ArrayDesignControllerImpl
```
@RequestMapping("/arrays")
public interface ArrayDesignController
```
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:

paul

Method Summary

All Methods Instance Methods Abstract Methods
Modifier and Type	Method	Description
`String`	`addAlternateName(Long arrayDesignId, String alternateName)`
`JsonReaderResponse<ArrayDesignValueObject>`	`browse(ListBatchCommand batch, Long[] ids, boolean showMerged, boolean showOrphans)`	AJAX call for remote paging store security isn't incorporated in db query, so paging needs to occur at higher level? Is there security for ArrayDesigns? ids can be null
`ModelAndView`	`delete(Long id)`	Delete an arrayDesign.
`void`	`downloadAnnotationFile(Long arrayDesignId, String fileType, javax.servlet.http.HttpServletResponse httpServletResponse)`
`ModelAndView`	`filter(String filter)`	Show array designs that match search criteria.
`ModelAndView`	`generateSummary(Long id)`	Build summary report for an array design
`Collection<ArrayDesignValueObject>`	`getArrayDesigns(Long[] arrayDesignIds, boolean showMergees, boolean showOrphans)`
`Collection<CompositeSequenceMapValueObject>`	`getCsSummaries(EntityDelegator<ArrayDesign> ed)`	Exposed for AJAX calls.
`Collection<CompositeSequenceMapValueObject>`	`getDesignSummaries(ArrayDesign arrayDesign)`
`ArrayDesignValueObject`	`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)`
`ModelAndView`	`showAllArrayDesigns()`	Show all array designs, or according to a list of IDs passed in.
`ModelAndView`	`showArrayDesign(Long id)`
`ModelAndView`	`showArrayDesignByName(String name)`
`ModelAndView`	`showCompositeSequences(Long id)`	Show (some of) the probes from an array.
`ModelAndView`	`showExpressionExperiments(Long id)`	shows a list of BioAssays for an expression experiment subset
`String`	`updateReport(EntityDelegator<ArrayDesign> ed)`
`String`	`updateReportById(Long id)`

Method Detail

addAlternateName

String addAlternateName(Long arrayDesignId,
                        String alternateName)

browse

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

AJAX call for remote paging store security isn't incorporated in db query, so paging needs to occur at higher level? Is there security for ArrayDesigns? ids can be null

delete

@RequestMapping("/deleteArrayDesign.html")
ModelAndView delete(@RequestParam("id")
                    Long id)

Delete an arrayDesign.

downloadAnnotationFile

@RequestMapping("/downloadAnnotationFile.html")
void downloadAnnotationFile(@RequestParam("id")
                            Long arrayDesignId,
                            @RequestParam(value="fileType",required=false)
                            String fileType,
                            javax.servlet.http.HttpServletResponse httpServletResponse)
                     throws IOException

Throws:: IOException

filter

@RequestMapping("/filterArrayDesigns.html")
ModelAndView filter(@RequestParam("filter")
                    String filter)

Show array designs that match search criteria.

generateSummary

@RequestMapping("/generateArrayDesignSummary.html")
ModelAndView generateSummary(@RequestParam(value="id",required=false)
                             Long id)

Build summary report for an array design

getArrayDesigns

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

getCsSummaries

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

Exposed for AJAX calls.

getDesignSummaries

Collection<CompositeSequenceMapValueObject> getDesignSummaries(ArrayDesign arrayDesign)

getReportHtml

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

Returns:: the HTML to display.

getSummaryForArrayDesign

String getSummaryForArrayDesign(Long id)

loadArrayDesignsForShowAll

Collection<ArrayDesignValueObject> loadArrayDesignsForShowAll(Long[] arrayDesignIds)

loadArrayDesignsSummary

ArrayDesignValueObject loadArrayDesignsSummary()

remove

String remove(EntityDelegator<ArrayDesign> ed)

showAllArrayDesigns

@RequestMapping("/showAllArrayDesigns.html")
ModelAndView showAllArrayDesigns()

Show all array designs, or according to a list of IDs passed in.

showArrayDesign

@RequestMapping(value={"/showArrayDesign.html","/"},
                params="id")
ModelAndView showArrayDesign(@RequestParam("id")
                             Long id)

showArrayDesignByName

@RequestMapping(value={"/showArrayDesign.html","/"},
                params="name")
ModelAndView showArrayDesignByName(@RequestParam("name")
                                   String name)

showCompositeSequences

@RequestMapping("/showCompositeSequenceSummary.html")
ModelAndView showCompositeSequences(@RequestParam("id")
                                    Long id)

Show (some of) the probes from an array.

showExpressionExperiments

@RequestMapping("/showExpressionExperiments.html")
ModelAndView showExpressionExperiments(@RequestParam("id")
                                       Long id)

shows a list of BioAssays for an expression experiment subset

Returns:: ModelAndView

updateReport

String updateReport(EntityDelegator<ArrayDesign> ed)

updateReportById
```
String updateReportById(Long id)
```

getDetails

ArrayDesignValueObject getDetails(Long id)

Interface ArrayDesignController