A B C D E G H I K M O S U V W

A

add(ModuleConfig) - Method in class org.molgenis.dataexplorer.controller.ModulesConfigResponse

aggregate(AggregateRequest) - Method in class org.molgenis.dataexplorer.controller.DataExplorerController

AggregateRequest - Class in org.molgenis.dataexplorer.controller

AggregateRequest() - Constructor for class org.molgenis.dataexplorer.controller.AggregateRequest

AggregateResponse - Class in org.molgenis.dataexplorer.controller

AggregateResponse(List<List<Long>>, Set<String>, Set<String>) - Constructor for class org.molgenis.dataexplorer.controller.AggregateResponse

AGGREGATES_NORESULTS_MESSAGE - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

annotateData(String[], String, boolean) - Method in class org.molgenis.dataexplorer.controller.AnnotatorController

Annotates a dataset based on selected dataset and selected annotators.

AnnotatorController - Class in org.molgenis.dataexplorer.controller

Controller wrapper for the dataexplorer annotator

AnnotatorController() - Constructor for class org.molgenis.dataexplorer.controller.AnnotatorController

B

BROWSERLINKS - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

C

CHAINS - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

COORDSYSTEM - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

D

DataExplorerController - Class in org.molgenis.dataexplorer.controller

Controller class for the data explorer.

DataExplorerController() - Constructor for class org.molgenis.dataexplorer.controller.DataExplorerController

DataExplorerDownloadHandler - Class in org.molgenis.dataexplorer.download

DataExplorerDownloadHandler(DataService) - Constructor for class org.molgenis.dataexplorer.download.DataExplorerDownloadHandler

DataExplorerHyperlinkDirective - Class in org.molgenis.dataexplorer.freemarker

Creates a link to the dataexplorer for a dataset usage: <@dataExplorerLink dataset='celiacsprue' class='btn'>Explore data created html: Explore data

DataExplorerHyperlinkDirective(MolgenisPluginRegistry, DataService) - Constructor for class org.molgenis.dataexplorer.freemarker.DataExplorerHyperlinkDirective

DataRequest - Class in org.molgenis.dataexplorer.controller

DataRequest() - Constructor for class org.molgenis.dataexplorer.controller.DataRequest

DataRequest.ColNames - Enum in org.molgenis.dataexplorer.controller

DataRequest.DownloadType - Enum in org.molgenis.dataexplorer.controller

DataRequest.EntityValues - Enum in org.molgenis.dataexplorer.controller

DEFAULT_AGGREGATES_NORESULTS_MESSAGE - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

DEFAULT_VAL_AGGREGATES_DISTINCT_HIDE - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

DEFAULT_VAL_HEADER_ABBREVIATE - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

DEFAULT_VAL_SHOW_WIZARD_ONINIT - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

download(String, HttpServletResponse) - Method in class org.molgenis.dataexplorer.controller.DataExplorerController

E

execute(Environment, Map, TemplateModel[], TemplateDirectiveBody) - Method in class org.molgenis.dataexplorer.freemarker.DataExplorerHyperlinkDirective

export(String, File) - Method in class org.molgenis.dataexplorer.galaxy.GalaxyDataExporter

export(String, File, String) - Method in class org.molgenis.dataexplorer.galaxy.GalaxyDataExporter

exportToGalaxy(GalaxyDataExportRequest, Model) - Method in class org.molgenis.dataexplorer.controller.DataExplorerController

G

GalaxyDataExporter - Class in org.molgenis.dataexplorer.galaxy

GalaxyDataExporter(String, String) - Constructor for class org.molgenis.dataexplorer.galaxy.GalaxyDataExporter

GalaxyDataExportException - Exception in org.molgenis.dataexplorer.galaxy

GalaxyDataExportException() - Constructor for exception org.molgenis.dataexplorer.galaxy.GalaxyDataExportException

GalaxyDataExportException(String) - Constructor for exception org.molgenis.dataexplorer.galaxy.GalaxyDataExportException

GalaxyDataExportException(String, Throwable) - Constructor for exception org.molgenis.dataexplorer.galaxy.GalaxyDataExportException

GalaxyDataExportException(Throwable) - Constructor for exception org.molgenis.dataexplorer.galaxy.GalaxyDataExportException

GalaxyDataExportRequest - Class in org.molgenis.dataexplorer.galaxy

GalaxyDataExportRequest() - Constructor for class org.molgenis.dataexplorer.galaxy.GalaxyDataExportRequest

getAttributeNames() - Method in class org.molgenis.dataexplorer.controller.DataRequest

getColNames() - Method in class org.molgenis.dataexplorer.controller.DataRequest

getDataRequest() - Method in class org.molgenis.dataexplorer.galaxy.GalaxyDataExportRequest

getDistinctAttributeName() - Method in class org.molgenis.dataexplorer.controller.AggregateRequest

getDownloadType() - Method in class org.molgenis.dataexplorer.controller.DataRequest

getEntityName() - Method in class org.molgenis.dataexplorer.controller.AggregateRequest

getEntityName() - Method in class org.molgenis.dataexplorer.controller.DataRequest

getEntityValues() - Method in class org.molgenis.dataexplorer.controller.DataRequest

getGalaxyApiKey() - Method in class org.molgenis.dataexplorer.galaxy.GalaxyDataExportRequest

getGalaxyUrl() - Method in class org.molgenis.dataexplorer.galaxy.GalaxyDataExportRequest

getIcon() - Method in class org.molgenis.dataexplorer.controller.ModuleConfig

getId() - Method in class org.molgenis.dataexplorer.controller.ModuleConfig

getLabel() - Method in class org.molgenis.dataexplorer.controller.ModuleConfig

getMapOfAvailableAnnotators(String) - Method in class org.molgenis.dataexplorer.controller.AnnotatorController

Gets a map of all available annotators.

getMatrix() - Method in class org.molgenis.dataexplorer.controller.AggregateResponse

getModule(String, String, Model) - Method in class org.molgenis.dataexplorer.controller.DataExplorerController

getModules(String) - Method in class org.molgenis.dataexplorer.controller.DataExplorerController

Returns modules configuration for this entity based on current user permissions.

getQ() - Method in class org.molgenis.dataexplorer.controller.AggregateRequest

getQuery() - Method in class org.molgenis.dataexplorer.controller.DataRequest

getSettings(String) - Method in class org.molgenis.dataexplorer.controller.DataExplorerController

getXAxisAttributeName() - Method in class org.molgenis.dataexplorer.controller.AggregateRequest

getxLabels() - Method in class org.molgenis.dataexplorer.controller.AggregateResponse

getYAxisAttributeName() - Method in class org.molgenis.dataexplorer.controller.AggregateRequest

getyLabels() - Method in class org.molgenis.dataexplorer.controller.AggregateResponse

H

handleGalaxyDataExportException(GalaxyDataExportException) - Method in class org.molgenis.dataexplorer.controller.DataExplorerController

handleRuntimeException(RuntimeException) - Method in class org.molgenis.dataexplorer.controller.AnnotatorController

handleRuntimeException(RuntimeException) - Method in class org.molgenis.dataexplorer.controller.DataExplorerController

HIGHLIGHTREGION - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

I

ID - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

init(String, Model) - Method in class org.molgenis.dataexplorer.controller.DataExplorerController

Show the explorer page

INITLOCATION - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

InputValidationException - Exception in org.molgenis.dataexplorer.controller

InputValidationException() - Constructor for exception org.molgenis.dataexplorer.controller.InputValidationException

InputValidationException(String) - Constructor for exception org.molgenis.dataexplorer.controller.InputValidationException

InputValidationException(Throwable) - Constructor for exception org.molgenis.dataexplorer.controller.InputValidationException

InputValidationException(String, Throwable) - Constructor for exception org.molgenis.dataexplorer.controller.InputValidationException

InputValidationException(String, Throwable, boolean, boolean) - Constructor for exception org.molgenis.dataexplorer.controller.InputValidationException

K

KEY_DATAEXPLORER_EDITABLE - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

KEY_DATAEXPLORER_ROW_CLICKABLE - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

KEY_DATATABLE - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

KEY_GALAXY_ENABLED - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

KEY_GALAXY_URL - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

KEY_HEADER_ABBREVIATE - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

KEY_HIDE_ITEM_SELECTION - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

KEY_HIDE_SEARCH_BOX - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

KEY_MOD_AGGREGATES - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

KEY_MOD_AGGREGATES_DISTINCT_HIDE - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

KEY_MOD_AGGREGATES_DISTINCT_OVERRIDE - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

KEY_MOD_ANNOTATORS - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

KEY_MOD_CHARTS - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

KEY_MOD_DATA - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

KEY_MOD_DISEASEMATCHER - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

KEY_MOD_ENTITIESREPORT - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

KEY_SHOW_WIZARD_ONINIT - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

M

ModuleConfig - Class in org.molgenis.dataexplorer.controller

ModuleConfig(String, String, String) - Constructor for class org.molgenis.dataexplorer.controller.ModuleConfig

ModulesConfigResponse - Class in org.molgenis.dataexplorer.controller

ModulesConfigResponse() - Constructor for class org.molgenis.dataexplorer.controller.ModulesConfigResponse

O

org.molgenis.dataexplorer.controller - package org.molgenis.dataexplorer.controller

org.molgenis.dataexplorer.download - package org.molgenis.dataexplorer.download

org.molgenis.dataexplorer.freemarker - package org.molgenis.dataexplorer.freemarker

org.molgenis.dataexplorer.galaxy - package org.molgenis.dataexplorer.galaxy

S

setAttributeNames(List<String>) - Method in class org.molgenis.dataexplorer.controller.DataRequest

setColNames(DataRequest.ColNames) - Method in class org.molgenis.dataexplorer.controller.DataRequest

setDataRequest(DataRequest) - Method in class org.molgenis.dataexplorer.galaxy.GalaxyDataExportRequest

setDistinctAttributeName(String) - Method in class org.molgenis.dataexplorer.controller.AggregateRequest

setDownloadType(DataRequest.DownloadType) - Method in class org.molgenis.dataexplorer.controller.DataRequest

setEntityName(String) - Method in class org.molgenis.dataexplorer.controller.AggregateRequest

setEntityName(String) - Method in class org.molgenis.dataexplorer.controller.DataRequest

setEntityValues(DataRequest.EntityValues) - Method in class org.molgenis.dataexplorer.controller.DataRequest

setGalaxyApiKey(String) - Method in class org.molgenis.dataexplorer.galaxy.GalaxyDataExportRequest

setGalaxyUrl(String) - Method in class org.molgenis.dataexplorer.galaxy.GalaxyDataExportRequest

setQ(List<QueryRule>) - Method in class org.molgenis.dataexplorer.controller.AggregateRequest

setQuery(QueryImpl) - Method in class org.molgenis.dataexplorer.controller.DataRequest

setXAxisAttributeName(String) - Method in class org.molgenis.dataexplorer.controller.AggregateRequest

setYAxisAttributeName(String) - Method in class org.molgenis.dataexplorer.controller.AggregateRequest

SOURCES - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

U

URI - Static variable in class org.molgenis.dataexplorer.controller.AnnotatorController

URI - Static variable in class org.molgenis.dataexplorer.controller.DataExplorerController

V

valueOf(String) - Static method in enum org.molgenis.dataexplorer.controller.DataRequest.ColNames

Returns the enum constant of this type with the specified name.

valueOf(String) - Static method in enum org.molgenis.dataexplorer.controller.DataRequest.DownloadType

Returns the enum constant of this type with the specified name.

valueOf(String) - Static method in enum org.molgenis.dataexplorer.controller.DataRequest.EntityValues

Returns the enum constant of this type with the specified name.

values() - Static method in enum org.molgenis.dataexplorer.controller.DataRequest.ColNames

Returns an array containing the constants of this enum type, in the order they are declared.

values() - Static method in enum org.molgenis.dataexplorer.controller.DataRequest.DownloadType

Returns an array containing the constants of this enum type, in the order they are declared.

values() - Static method in enum org.molgenis.dataexplorer.controller.DataRequest.EntityValues

Returns an array containing the constants of this enum type, in the order they are declared.

viewEntityDetails(String, String, Model) - Method in class org.molgenis.dataexplorer.controller.DataExplorerController

Builds a model containing one entity and returns the entityReport ftl view

W

writeToCsv(DataRequest, OutputStream, char) - Method in class org.molgenis.dataexplorer.download.DataExplorerDownloadHandler

writeToCsv(DataRequest, OutputStream, char, boolean) - Method in class org.molgenis.dataexplorer.download.DataExplorerDownloadHandler

writeToExcel(DataRequest, OutputStream) - Method in class org.molgenis.dataexplorer.download.DataExplorerDownloadHandler

A B C D E G H I K M O S U V W