A B C D E F G H I J K L M N O P Q R S T U V W X Z

A

AccessionController - Class in org.molgenis.controller

AccessionController() - Constructor for class org.molgenis.controller.AccessionController

AccessionSecurityDecorator<E extends Accession> - Class in org.molgenis.omx.observ.target.db

TODO add column level security filters

AccessionSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.target.db.AccessionSecurityDecorator

AccessionService - Class in org.molgenis.service

AccessionService() - Constructor for class org.molgenis.service.AccessionService

add(List<E>) - Method in class org.molgenis.omx.auth.db.InstituteSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.auth.db.InstituteSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisGroupSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.auth.db.MolgenisGroupSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisPermissionSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.auth.db.MolgenisPermissionSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisRoleGroupLinkSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.auth.db.MolgenisRoleGroupLinkSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisRoleSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.auth.db.MolgenisRoleSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisUserSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.auth.db.MolgenisUserSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.auth.db.PersonRoleSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.auth.db.PersonRoleSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.auth.db.PersonSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.auth.db.PersonSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.core.db.MolgenisEntitySecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.core.db.MolgenisEntitySecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.core.db.MolgenisFileSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.core.db.MolgenisFileSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.core.db.RuntimePropertySecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.core.db.RuntimePropertySecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.filter.db.StudyDataRequestSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.filter.db.StudyDataRequestSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.db.CategorySecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.db.CategorySecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.db.CharacteristicSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.db.CharacteristicSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.db.DataSetSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.db.DataSetSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.db.ObservableFeatureSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.db.ObservableFeatureSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.db.ObservationSetSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.db.ObservationSetSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.db.ObservationTargetSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.db.ObservationTargetSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.db.ObservedValueSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.db.ObservedValueSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.db.ProtocolSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.db.ProtocolSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.target.db.AccessionSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.target.db.AccessionSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.target.db.IndividualSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.target.db.IndividualSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.target.db.OntologySecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.target.db.OntologySecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.target.db.OntologyTermSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.target.db.OntologyTermSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.target.db.PanelSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.target.db.PanelSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.target.db.PanelSourceSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.target.db.PanelSourceSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.target.db.SpeciesSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.target.db.SpeciesSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.value.db.BoolValueSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.value.db.BoolValueSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.value.db.CategoricalValueSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.value.db.CategoricalValueSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.value.db.DateTimeValueSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.value.db.DateTimeValueSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.value.db.DateValueSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.value.db.DateValueSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.value.db.DecimalValueSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.value.db.DecimalValueSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.value.db.EmailValueSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.value.db.EmailValueSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.value.db.HtmlValueSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.value.db.HtmlValueSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.value.db.HyperlinkValueSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.value.db.HyperlinkValueSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.value.db.IntValueSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.value.db.IntValueSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.value.db.LongValueSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.value.db.LongValueSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.value.db.MrefValueSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.value.db.MrefValueSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.value.db.StringValueSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.value.db.StringValueSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.value.db.TextValueSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.value.db.TextValueSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.value.db.ValueSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.value.db.ValueSecurityDecorator

add(List<E>) - Method in class org.molgenis.omx.observ.value.db.XrefValueSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.observ.value.db.XrefValueSecurityDecorator

addDataSet(ExcelWriter) - Method in class org.molgenis.sampletab.SampleTabOmxConverter

addObserableFeatureTab(ExcelWriter, List<String>) - Method in class org.molgenis.sampletab.SampleTabOmxConverter

addOntologyTermTab(ExcelWriter) - Method in class org.molgenis.sampletab.SampleTabOmxConverter

addProtocolTab(ExcelWriter, List<String>) - Method in class org.molgenis.sampletab.SampleTabOmxConverter

addResourceHandlers(ResourceHandlerRegistry) - Method in class org.molgenis.omx.WebAppConfig

Address - Class in org.molgenis.jaxb

Java class for Address complex type.

Address() - Constructor for class org.molgenis.jaxb.Address

addSDataSetMatrix(ExcelWriter, ExcelSheetReader, List<String>) - Method in class org.molgenis.sampletab.SampleTabOmxConverter

AdminMenu - Class in org.molgenis.ui

AdminMenu(ScreenController<?>) - Constructor for class org.molgenis.ui.AdminMenu

anatomicSource - Variable in class org.molgenis.jaxb.SpecimenCollectionSummary

AnnotationAvailabilityProfile - Class in org.molgenis.jaxb

Java class for AnnotationAvailabilityProfile complex type.

AnnotationAvailabilityProfile() - Constructor for class org.molgenis.jaxb.AnnotationAvailabilityProfile

AnnotationAvailabilityProfile.ProvidesInformationTo - Class in org.molgenis.jaxb

Java class for anonymous complex type.

AnnotationAvailabilityProfile.ProvidesInformationTo() - Constructor for class org.molgenis.jaxb.AnnotationAvailabilityProfile.ProvidesInformationTo

applicationContextProvider() - Method in class org.molgenis.omx.WebAppConfig

Bean that allows referencing Spring managed beans from Java code which is not managed by Spring

appName - Variable in class org.molgenis.servlet.UsedMolgenisOptions

AuthMenu - Class in org.molgenis.ui

AuthMenu(ScreenController<?>) - Constructor for class org.molgenis.ui.AuthMenu

B

BackgroundPlugin - Class in org.molgenis.omx.plugins

BackgroundPlugin(String, ScreenController<?>) - Constructor for class org.molgenis.omx.plugins.BackgroundPlugin

BackgroundPlugin.BackgroundModel - Class in org.molgenis.omx.plugins

BackgroundPlugin.BackgroundModel() - Constructor for class org.molgenis.omx.plugins.BackgroundPlugin.BackgroundModel

BackgroundPluginPlugin - Class in org.molgenis.ui

BackgroundPluginPlugin(ScreenController<?>) - Constructor for class org.molgenis.ui.BackgroundPluginPlugin

BbmriToOmxConverter - Class in org.molgenis.bbmri

BbmriToOmxConverter(String, String) - Constructor for class org.molgenis.bbmri.BbmriToOmxConverter

bla(ExcelSheetReader, String) - Method in class org.molgenis.gids.tools.compare.ValidationFile

bla(CsvReader, String) - Method in class org.molgenis.gids.tools.compare.ValidationFile

BoolValueController - Class in org.molgenis.controller

BoolValueController() - Constructor for class org.molgenis.controller.BoolValueController

BoolValueSecurityDecorator<E extends BoolValue> - Class in org.molgenis.omx.observ.value.db

TODO add column level security filters

BoolValueSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.value.db.BoolValueSecurityDecorator

BoolValueService - Class in org.molgenis.service

BoolValueService() - Constructor for class org.molgenis.service.BoolValueService

C

CategoricalValueController - Class in org.molgenis.controller

CategoricalValueController() - Constructor for class org.molgenis.controller.CategoricalValueController

CategoricalValueSecurityDecorator<E extends CategoricalValue> - Class in org.molgenis.omx.observ.value.db

TODO add column level security filters

CategoricalValueSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.value.db.CategoricalValueSecurityDecorator

CategoricalValueService - Class in org.molgenis.service

CategoricalValueService() - Constructor for class org.molgenis.service.CategoricalValueService

CategoryController - Class in org.molgenis.controller

CategoryController() - Constructor for class org.molgenis.controller.CategoryController

CategoryFormController - Class in org.molgenis.ui

CategoryFormController() - Constructor for class org.molgenis.ui.CategoryFormController

CategoryFormController(ScreenController<?>) - Constructor for class org.molgenis.ui.CategoryFormController

CategorySecurityDecorator<E extends Category> - Class in org.molgenis.omx.observ.db

TODO add column level security filters

CategorySecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.db.CategorySecurityDecorator

CategoryService - Class in org.molgenis.service

CategoryService() - Constructor for class org.molgenis.service.CategoryService

CbmNode - Class in org.molgenis.jaxb

Java class for CbmNode complex type.

CbmNode() - Constructor for class org.molgenis.jaxb.CbmNode

CbmNode.Protocols - Class in org.molgenis.jaxb

Java class for anonymous complex type.

CbmNode.Protocols() - Constructor for class org.molgenis.jaxb.CbmNode.Protocols

CbmToOmxConverter - Class in org.molgenis.cbm

CbmToOmxConverter(String, ScreenController<?>) - Constructor for class org.molgenis.cbm.CbmToOmxConverter

CbmXmlParser - Class in org.molgenis.cbm

CbmXmlParser() - Constructor for class org.molgenis.cbm.CbmXmlParser

CharacteristicController - Class in org.molgenis.controller

CharacteristicController() - Constructor for class org.molgenis.controller.CharacteristicController

CharacteristicSecurityDecorator<E extends Characteristic> - Class in org.molgenis.omx.observ.db

TODO add column level security filters

CharacteristicSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.db.CharacteristicSecurityDecorator

CharacteristicService - Class in org.molgenis.service

CharacteristicService() - Constructor for class org.molgenis.service.CharacteristicService

check(String, String, BufferedWriter) - Method in class org.molgenis.gids.tools.compare.ValidationChecker

checkIfDouble(String) - Method in class org.molgenis.gids.tools.convertor.SampleConverter

city - Variable in class org.molgenis.jaxb.Address

collectColumns(ExcelSheetReader) - Method in class org.molgenis.sampletab.SampleTabOmxConverter

collectionProtocol - Variable in class org.molgenis.jaxb.AnnotationAvailabilityProfile.ProvidesInformationTo

collectionProtocol - Variable in class org.molgenis.jaxb.CbmNode.Protocols

CollectionProtocol - Class in org.molgenis.jaxb

Java class for CollectionProtocol complex type.

CollectionProtocol() - Constructor for class org.molgenis.jaxb.CollectionProtocol

collectionProtocol - Variable in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile.RestrictsAccessTo

CollectionProtocol.Enrolls - Class in org.molgenis.jaxb

Java class for anonymous complex type.

CollectionProtocol.Enrolls() - Constructor for class org.molgenis.jaxb.CollectionProtocol.Enrolls

CollectionProtocol.ResidesAt - Class in org.molgenis.jaxb

Java class for anonymous complex type.

CollectionProtocol.ResidesAt() - Constructor for class org.molgenis.jaxb.CollectionProtocol.ResidesAt

collectObservableFeatures(List<String>) - Method in class org.molgenis.sampletab.SampleTabOmxConverter

compareRows(Tuple, Tuple, List<String>, LinkedHashMap<String, String>, BufferedWriter) - Static method in class org.molgenis.gids.tools.compare.ValidationChecker

configureMessageConverters(List<HttpMessageConverter<?>>) - Method in class org.molgenis.omx.WebAppConfig

ContactPlugin - Class in org.molgenis.omx.plugins

ContactPlugin(String, ScreenController<?>) - Constructor for class org.molgenis.omx.plugins.ContactPlugin

ContactPlugin.ContactModel - Class in org.molgenis.omx.plugins

ContactPlugin.ContactModel() - Constructor for class org.molgenis.omx.plugins.ContactPlugin.ContactModel

ContactPluginPlugin - Class in org.molgenis.ui

ContactPluginPlugin(ScreenController<?>) - Constructor for class org.molgenis.ui.ContactPluginPlugin

contextDestroyed(ServletContextEvent) - Method in class org.molgenis.servlet.MolgenisContextListener

contextInitialized(ServletContextEvent) - Method in class org.molgenis.servlet.MolgenisContextListener

convert() - Method in class org.molgenis.bbmri.BbmriToOmxConverter

convert(InputStream, OutputStream, String, String) - Method in class org.molgenis.gids.tools.convertor.SampleConverter

ConvertersMenu - Class in org.molgenis.ui

ConvertersMenu(ScreenController<?>) - Constructor for class org.molgenis.ui.ConvertersMenu

ConvertGidsMain - Class in org.molgenis.gids.tools.convertor

ConvertGidsMain() - Constructor for class org.molgenis.gids.tools.convertor.ConvertGidsMain

ConvertXmlDataPlugin - Class in org.molgenis.ui

ConvertXmlDataPlugin(ScreenController<?>) - Constructor for class org.molgenis.ui.ConvertXmlDataPlugin

count(QueryRule...) - Method in class org.molgenis.omx.auth.db.InstituteSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.auth.db.MolgenisGroupSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.auth.db.MolgenisPermissionSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.auth.db.MolgenisRoleGroupLinkSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.auth.db.MolgenisRoleSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.auth.db.MolgenisUserSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.auth.db.PersonRoleSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.auth.db.PersonSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.core.db.MolgenisEntitySecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.core.db.MolgenisFileSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.core.db.RuntimePropertySecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.filter.db.StudyDataRequestSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.db.CategorySecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.db.CharacteristicSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.db.DataSetSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.db.ObservableFeatureSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.db.ObservationSetSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.db.ObservationTargetSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.db.ObservedValueSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.db.ProtocolSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.target.db.AccessionSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.target.db.IndividualSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.target.db.OntologySecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.target.db.OntologyTermSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.target.db.PanelSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.target.db.PanelSourceSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.target.db.SpeciesSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.BoolValueSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.CategoricalValueSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.DateTimeValueSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.DateValueSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.DecimalValueSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.EmailValueSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.HtmlValueSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.HyperlinkValueSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.IntValueSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.LongValueSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.MrefValueSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.StringValueSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.TextValueSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.ValueSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.XrefValueSecurityDecorator

country - Variable in class org.molgenis.jaxb.Address

create(Accession) - Method in class org.molgenis.service.AccessionService

create(BoolValue) - Method in class org.molgenis.service.BoolValueService

create(CategoricalValue) - Method in class org.molgenis.service.CategoricalValueService

create(Category) - Method in class org.molgenis.service.CategoryService

create(Characteristic) - Method in class org.molgenis.service.CharacteristicService

create(DataSet) - Method in class org.molgenis.service.DataSetService

create(DateTimeValue) - Method in class org.molgenis.service.DateTimeValueService

create(DateValue) - Method in class org.molgenis.service.DateValueService

create(DecimalValue) - Method in class org.molgenis.service.DecimalValueService

create(EmailValue) - Method in class org.molgenis.service.EmailValueService

create(HtmlValue) - Method in class org.molgenis.service.HtmlValueService

create(HyperlinkValue) - Method in class org.molgenis.service.HyperlinkValueService

create(Individual) - Method in class org.molgenis.service.IndividualService

create(Institute) - Method in class org.molgenis.service.InstituteService

create(IntValue) - Method in class org.molgenis.service.IntValueService

create(LongValue) - Method in class org.molgenis.service.LongValueService

create(MolgenisFile) - Method in class org.molgenis.service.MolgenisFileService

create(MrefValue) - Method in class org.molgenis.service.MrefValueService

create(ObservableFeature) - Method in class org.molgenis.service.ObservableFeatureService

create(ObservationSet) - Method in class org.molgenis.service.ObservationSetService

create(ObservationTarget) - Method in class org.molgenis.service.ObservationTargetService

create(ObservedValue) - Method in class org.molgenis.service.ObservedValueService

create(Ontology) - Method in class org.molgenis.service.OntologyService

create(OntologyTerm) - Method in class org.molgenis.service.OntologyTermService

create(Panel) - Method in class org.molgenis.service.PanelService

create(PanelSource) - Method in class org.molgenis.service.PanelSourceService

create(PersonRole) - Method in class org.molgenis.service.PersonRoleService

create(Person) - Method in class org.molgenis.service.PersonService

create(Protocol) - Method in class org.molgenis.service.ProtocolService

create(RuntimeProperty) - Method in class org.molgenis.service.RuntimePropertyService

create(Species) - Method in class org.molgenis.service.SpeciesService

create(StringValue) - Method in class org.molgenis.service.StringValueService

create(StudyDataRequest) - Method in class org.molgenis.service.StudyDataRequestService

create(TextValue) - Method in class org.molgenis.service.TextValueService

create(Value) - Method in class org.molgenis.service.ValueService

create(XrefValue) - Method in class org.molgenis.service.XrefValueService

createAccession(AccessionController.AccessionRequest) - Method in class org.molgenis.controller.AccessionController

createAccessionFromForm(AccessionController.AccessionRequest) - Method in class org.molgenis.controller.AccessionController

createAddress() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of Address

createAddress(Address) - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of JAXBElement<Address>}

createAnnotationAvailabilityProfile() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of AnnotationAvailabilityProfile

createAnnotationAvailabilityProfile(AnnotationAvailabilityProfile) - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of JAXBElement<AnnotationAvailabilityProfile>}

createAnnotationAvailabilityProfileProvidesInformationTo() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of AnnotationAvailabilityProfile.ProvidesInformationTo

createBoolValue(BoolValueController.BoolValueRequest) - Method in class org.molgenis.controller.BoolValueController

createBoolValueFromForm(BoolValueController.BoolValueRequest) - Method in class org.molgenis.controller.BoolValueController

createCategoricalValue(CategoricalValueController.CategoricalValueRequest) - Method in class org.molgenis.controller.CategoricalValueController

createCategoricalValueFromForm(CategoricalValueController.CategoricalValueRequest) - Method in class org.molgenis.controller.CategoricalValueController

createCategory(CategoryController.CategoryRequest) - Method in class org.molgenis.controller.CategoryController

createCategoryFromForm(CategoryController.CategoryRequest) - Method in class org.molgenis.controller.CategoryController

createCbmNode() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of CbmNode

createCbmNode(CbmNode) - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of JAXBElement<CbmNode>}

createCbmNodeProtocols() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of CbmNode.Protocols

createCharacteristic(CharacteristicController.CharacteristicRequest) - Method in class org.molgenis.controller.CharacteristicController

createCharacteristicFromForm(CharacteristicController.CharacteristicRequest) - Method in class org.molgenis.controller.CharacteristicController

createCollectionProtocol() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of CollectionProtocol

createCollectionProtocol(CollectionProtocol) - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of JAXBElement<CollectionProtocol>}

createCollectionProtocolEnrolls() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of CollectionProtocol.Enrolls

createCollectionProtocolResidesAt() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of CollectionProtocol.ResidesAt

createDataSet(DataSetController.DataSetRequest) - Method in class org.molgenis.controller.DataSetController

createDataSetFromForm(DataSetController.DataSetRequest) - Method in class org.molgenis.controller.DataSetController

createDateTimeValue(DateTimeValueController.DateTimeValueRequest) - Method in class org.molgenis.controller.DateTimeValueController

createDateTimeValueFromForm(DateTimeValueController.DateTimeValueRequest) - Method in class org.molgenis.controller.DateTimeValueController

createDateValue(DateValueController.DateValueRequest) - Method in class org.molgenis.controller.DateValueController

createDateValueFromForm(DateValueController.DateValueRequest) - Method in class org.molgenis.controller.DateValueController

createDecimalValue(DecimalValueController.DecimalValueRequest) - Method in class org.molgenis.controller.DecimalValueController

createDecimalValueFromForm(DecimalValueController.DecimalValueRequest) - Method in class org.molgenis.controller.DecimalValueController

createDiagnosis() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of Diagnosis

createDiagnosis(Diagnosis) - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of JAXBElement<Diagnosis>}

createEmailValue(EmailValueController.EmailValueRequest) - Method in class org.molgenis.controller.EmailValueController

createEmailValueFromForm(EmailValueController.EmailValueRequest) - Method in class org.molgenis.controller.EmailValueController

createEntities(String[][]) - Static method in class org.molgenis.MolgenisDatabasePopulator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.auth.db.InstituteSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.auth.db.MolgenisGroupSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.auth.db.MolgenisPermissionSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.auth.db.MolgenisRoleGroupLinkSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.auth.db.MolgenisRoleSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.auth.db.MolgenisUserSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.auth.db.PersonRoleSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.auth.db.PersonSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.core.db.MolgenisEntitySecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.core.db.MolgenisFileSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.core.db.RuntimePropertySecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.filter.db.StudyDataRequestSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.db.CategorySecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.db.CharacteristicSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.db.DataSetSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.db.ObservableFeatureSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.db.ObservationSetSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.db.ObservationTargetSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.db.ObservedValueSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.db.ProtocolSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.target.db.AccessionSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.target.db.IndividualSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.target.db.OntologySecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.target.db.OntologyTermSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.target.db.PanelSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.target.db.PanelSourceSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.target.db.SpeciesSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.BoolValueSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.CategoricalValueSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.DateTimeValueSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.DateValueSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.DecimalValueSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.EmailValueSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.HtmlValueSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.HyperlinkValueSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.IntValueSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.LongValueSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.MrefValueSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.StringValueSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.TextValueSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.ValueSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.XrefValueSecurityDecorator

createGroup(Database, String) - Method in class org.molgenis.MolgenisDatabasePopulator

createHtmlValue(HtmlValueController.HtmlValueRequest) - Method in class org.molgenis.controller.HtmlValueController

createHtmlValueFromForm(HtmlValueController.HtmlValueRequest) - Method in class org.molgenis.controller.HtmlValueController

createHyperlinkValue(HyperlinkValueController.HyperlinkValueRequest) - Method in class org.molgenis.controller.HyperlinkValueController

createHyperlinkValueFromForm(HyperlinkValueController.HyperlinkValueRequest) - Method in class org.molgenis.controller.HyperlinkValueController

createIdentifier(String) - Method in class org.molgenis.sampletab.SampleTabOmxConverter

createIndividual(IndividualController.IndividualRequest) - Method in class org.molgenis.controller.IndividualController

createIndividualFromForm(IndividualController.IndividualRequest) - Method in class org.molgenis.controller.IndividualController

createInstitute(InstituteController.InstituteRequest) - Method in class org.molgenis.controller.InstituteController

createInstituteFromForm(InstituteController.InstituteRequest) - Method in class org.molgenis.controller.InstituteController

createInstitution() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of Institution

createInstitution(Institution) - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of JAXBElement<Institution>}

createIntValue(IntValueController.IntValueRequest) - Method in class org.molgenis.controller.IntValueController

createIntValueFromForm(IntValueController.IntValueRequest) - Method in class org.molgenis.controller.IntValueController

createLongValue(LongValueController.LongValueRequest) - Method in class org.molgenis.controller.LongValueController

createLongValueFromForm(LongValueController.LongValueRequest) - Method in class org.molgenis.controller.LongValueController

createMolgenisFile(MolgenisFileController.MolgenisFileRequest) - Method in class org.molgenis.controller.MolgenisFileController

createMolgenisFileFromForm(MolgenisFileController.MolgenisFileRequest) - Method in class org.molgenis.controller.MolgenisFileController

createMrefValue(MrefValueController.MrefValueRequest) - Method in class org.molgenis.controller.MrefValueController

createMrefValueFromForm(MrefValueController.MrefValueRequest) - Method in class org.molgenis.controller.MrefValueController

createObservableFeature(ObservableFeatureController.ObservableFeatureRequest) - Method in class org.molgenis.controller.ObservableFeatureController

createObservableFeatureFromForm(ObservableFeatureController.ObservableFeatureRequest) - Method in class org.molgenis.controller.ObservableFeatureController

createObservationSet(ObservationSetController.ObservationSetRequest) - Method in class org.molgenis.controller.ObservationSetController

createObservationSetFromForm(ObservationSetController.ObservationSetRequest) - Method in class org.molgenis.controller.ObservationSetController

createObservationTarget(ObservationTargetController.ObservationTargetRequest) - Method in class org.molgenis.controller.ObservationTargetController

createObservationTargetFromForm(ObservationTargetController.ObservationTargetRequest) - Method in class org.molgenis.controller.ObservationTargetController

createObservedValue(ObservedValueController.ObservedValueRequest) - Method in class org.molgenis.controller.ObservedValueController

createObservedValueFromForm(ObservedValueController.ObservedValueRequest) - Method in class org.molgenis.controller.ObservedValueController

createOntology(OntologyController.OntologyRequest) - Method in class org.molgenis.controller.OntologyController

createOntologyFromForm(OntologyController.OntologyRequest) - Method in class org.molgenis.controller.OntologyController

createOntologyTerm(OntologyTermController.OntologyTermRequest) - Method in class org.molgenis.controller.OntologyTermController

createOntologyTermFromForm(OntologyTermController.OntologyTermRequest) - Method in class org.molgenis.controller.OntologyTermController

createOrganization() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of Organization

createOrganization(Organization) - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of JAXBElement<Organization>}

createPanel(PanelController.PanelRequest) - Method in class org.molgenis.controller.PanelController

createPanelFromForm(PanelController.PanelRequest) - Method in class org.molgenis.controller.PanelController

createPanelSource(PanelSourceController.PanelSourceRequest) - Method in class org.molgenis.controller.PanelSourceController

createPanelSourceFromForm(PanelSourceController.PanelSourceRequest) - Method in class org.molgenis.controller.PanelSourceController

createParticipantCollectionSummary() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of ParticipantCollectionSummary

createParticipantCollectionSummary(ParticipantCollectionSummary) - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of JAXBElement<ParticipantCollectionSummary>}

createParticipantCollectionSummaryIsClassifiedBy() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of ParticipantCollectionSummary.IsClassifiedBy

createParticipantCollectionSummaryProvides() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of ParticipantCollectionSummary.Provides

createParticipantCollectionSummaryReceives() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of ParticipantCollectionSummary.Receives

createPatientAgeGroupAtCollection() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of PatientAgeGroupAtCollection

createPatientAgeGroupAtCollection(PatientAgeGroupAtCollection) - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of JAXBElement<PatientAgeGroupAtCollection>}

createPatientAgeGroupAtCollectionDescribesPatientAge() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of PatientAgeGroupAtCollection.DescribesPatientAge

createPermission(Database, Class<?>, MolgenisRole, String) - Method in class org.molgenis.MolgenisDatabasePopulator

createPerson(PersonController.PersonRequest) - Method in class org.molgenis.controller.PersonController

createPerson() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of Person

createPerson(Person) - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of JAXBElement<Person>}

createPersonFromForm(PersonController.PersonRequest) - Method in class org.molgenis.controller.PersonController

createPersonRole(PersonRoleController.PersonRoleRequest) - Method in class org.molgenis.controller.PersonRoleController

createPersonRoleFromForm(PersonRoleController.PersonRoleRequest) - Method in class org.molgenis.controller.PersonRoleController

createPreservation() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of Preservation

createPreservation(Preservation) - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of JAXBElement<Preservation>}

createPreservationIsAppliedTo() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of Preservation.IsAppliedTo

createProtocol(ProtocolController.ProtocolRequest) - Method in class org.molgenis.controller.ProtocolController

createProtocolFromForm(ProtocolController.ProtocolRequest) - Method in class org.molgenis.controller.ProtocolController

createRace() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of Race

createRace(Race) - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of JAXBElement<Race>}

createRuntimeProperty(RuntimePropertyController.RuntimePropertyRequest) - Method in class org.molgenis.controller.RuntimePropertyController

createRuntimePropertyFromForm(RuntimePropertyController.RuntimePropertyRequest) - Method in class org.molgenis.controller.RuntimePropertyController

createSpecies(SpeciesController.SpeciesRequest) - Method in class org.molgenis.controller.SpeciesController

createSpeciesFromForm(SpeciesController.SpeciesRequest) - Method in class org.molgenis.controller.SpeciesController

createSpecimenAvailabilitySummaryProfile() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of SpecimenAvailabilitySummaryProfile

createSpecimenAvailabilitySummaryProfile(SpecimenAvailabilitySummaryProfile) - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of JAXBElement<SpecimenAvailabilitySummaryProfile>}

createSpecimenAvailabilitySummaryProfileRestrictsAccessTo() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of SpecimenAvailabilitySummaryProfile.RestrictsAccessTo

createSpecimenCollectionContact() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of SpecimenCollectionContact

createSpecimenCollectionContact(SpecimenCollectionContact) - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of JAXBElement<SpecimenCollectionContact>}

createSpecimenCollectionSummary() - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of SpecimenCollectionSummary

createSpecimenCollectionSummary(SpecimenCollectionSummary) - Method in class org.molgenis.jaxb.ObjectFactory

Create an instance of JAXBElement<SpecimenCollectionSummary>}

createStringValue(StringValueController.StringValueRequest) - Method in class org.molgenis.controller.StringValueController

createStringValueFromForm(StringValueController.StringValueRequest) - Method in class org.molgenis.controller.StringValueController

createStudyDataRequest(StudyDataRequestController.StudyDataRequestRequest) - Method in class org.molgenis.controller.StudyDataRequestController

createStudyDataRequestFromForm(StudyDataRequestController.StudyDataRequestRequest) - Method in class org.molgenis.controller.StudyDataRequestController

createTextValue(TextValueController.TextValueRequest) - Method in class org.molgenis.controller.TextValueController

createTextValueFromForm(TextValueController.TextValueRequest) - Method in class org.molgenis.controller.TextValueController

createUser(Database, String, String, String, String, String, boolean) - Method in class org.molgenis.MolgenisDatabasePopulator

createUserInterface() - Method in class org.molgenis.servlet.GuiService

createValue(ValueController.ValueRequest) - Method in class org.molgenis.controller.ValueController

createValueFromForm(ValueController.ValueRequest) - Method in class org.molgenis.controller.ValueController

createXrefValue(XrefValueController.XrefValueRequest) - Method in class org.molgenis.controller.XrefValueController

createXrefValueFromForm(XrefValueController.XrefValueRequest) - Method in class org.molgenis.controller.XrefValueController

CsvEntityExporter - Class in org.molgenis

CsvEntityExporter() - Constructor for class org.molgenis.CsvEntityExporter

D

database() - Method in class org.molgenis.DatabaseConfig

Entitymanager-per-HTTP-request pattern in a multi-user client/server application authenticated for current user

DatabaseConfig - Class in org.molgenis

DatabaseConfig() - Constructor for class org.molgenis.DatabaseConfig

databasePopulator() - Method in class org.molgenis.omx.WebAppConfig

DataExplorerPluginPlugin - Class in org.molgenis.ui

DataExplorerPluginPlugin(ScreenController<?>) - Constructor for class org.molgenis.ui.DataExplorerPluginPlugin

DataSetController - Class in org.molgenis.controller

DataSetController() - Constructor for class org.molgenis.controller.DataSetController

DataSetDeleterPluginPlugin - Class in org.molgenis.ui

DataSetDeleterPluginPlugin(ScreenController<?>) - Constructor for class org.molgenis.ui.DataSetDeleterPluginPlugin

DataSetFormController - Class in org.molgenis.ui

DataSetFormController() - Constructor for class org.molgenis.ui.DataSetFormController

DataSetFormController(ScreenController<?>) - Constructor for class org.molgenis.ui.DataSetFormController

DataSetSecurityDecorator<E extends DataSet> - Class in org.molgenis.omx.observ.db

TODO add column level security filters

DataSetSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.db.DataSetSecurityDecorator

DataSetService - Class in org.molgenis.service

DataSetService() - Constructor for class org.molgenis.service.DataSetService

DataSetsIndexerPluginPlugin - Class in org.molgenis.ui

DataSetsIndexerPluginPlugin(ScreenController<?>) - Constructor for class org.molgenis.ui.DataSetsIndexerPluginPlugin

dateLastUpdated - Variable in class org.molgenis.jaxb.CollectionProtocol

DateTimeValueController - Class in org.molgenis.controller

DateTimeValueController() - Constructor for class org.molgenis.controller.DateTimeValueController

DateTimeValueSecurityDecorator<E extends DateTimeValue> - Class in org.molgenis.omx.observ.value.db

TODO add column level security filters

DateTimeValueSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.value.db.DateTimeValueSecurityDecorator

DateTimeValueService - Class in org.molgenis.service

DateTimeValueService() - Constructor for class org.molgenis.service.DateTimeValueService

DateValueController - Class in org.molgenis.controller

DateValueController() - Constructor for class org.molgenis.controller.DateValueController

DateValueSecurityDecorator<E extends DateValue> - Class in org.molgenis.omx.observ.value.db

TODO add column level security filters

DateValueSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.value.db.DateValueSecurityDecorator

DateValueService - Class in org.molgenis.service

DateValueService() - Constructor for class org.molgenis.service.DateValueService

DecimalValueController - Class in org.molgenis.controller

DecimalValueController() - Constructor for class org.molgenis.controller.DecimalValueController

DecimalValueSecurityDecorator<E extends DecimalValue> - Class in org.molgenis.omx.observ.value.db

TODO add column level security filters

DecimalValueSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.value.db.DecimalValueSecurityDecorator

DecimalValueService - Class in org.molgenis.service

DecimalValueService() - Constructor for class org.molgenis.service.DecimalValueService

deleteAccession(Integer) - Method in class org.molgenis.controller.AccessionController

deleteAccessionPost(Integer) - Method in class org.molgenis.controller.AccessionController

deleteBoolValue(Integer) - Method in class org.molgenis.controller.BoolValueController

deleteBoolValuePost(Integer) - Method in class org.molgenis.controller.BoolValueController

deleteById(Integer) - Method in class org.molgenis.service.AccessionService

deleteById(Integer) - Method in class org.molgenis.service.BoolValueService

deleteById(Integer) - Method in class org.molgenis.service.CategoricalValueService

deleteById(Integer) - Method in class org.molgenis.service.CategoryService

deleteById(Integer) - Method in class org.molgenis.service.CharacteristicService

deleteById(Integer) - Method in class org.molgenis.service.DataSetService

deleteById(Integer) - Method in class org.molgenis.service.DateTimeValueService

deleteById(Integer) - Method in class org.molgenis.service.DateValueService

deleteById(Integer) - Method in class org.molgenis.service.DecimalValueService

deleteById(Integer) - Method in class org.molgenis.service.EmailValueService

deleteById(Integer) - Method in class org.molgenis.service.HtmlValueService

deleteById(Integer) - Method in class org.molgenis.service.HyperlinkValueService

deleteById(Integer) - Method in class org.molgenis.service.IndividualService

deleteById(Integer) - Method in class org.molgenis.service.InstituteService

deleteById(Integer) - Method in class org.molgenis.service.IntValueService

deleteById(Integer) - Method in class org.molgenis.service.LongValueService

deleteById(Integer) - Method in class org.molgenis.service.MolgenisFileService

deleteById(Integer) - Method in class org.molgenis.service.MrefValueService

deleteById(Integer) - Method in class org.molgenis.service.ObservableFeatureService

deleteById(Integer) - Method in class org.molgenis.service.ObservationSetService

deleteById(Integer) - Method in class org.molgenis.service.ObservationTargetService

deleteById(Integer) - Method in class org.molgenis.service.ObservedValueService

deleteById(Integer) - Method in class org.molgenis.service.OntologyService

deleteById(Integer) - Method in class org.molgenis.service.OntologyTermService

deleteById(Integer) - Method in class org.molgenis.service.PanelService

deleteById(Integer) - Method in class org.molgenis.service.PanelSourceService

deleteById(Integer) - Method in class org.molgenis.service.PersonRoleService

deleteById(Integer) - Method in class org.molgenis.service.PersonService

deleteById(Integer) - Method in class org.molgenis.service.ProtocolService

deleteById(Integer) - Method in class org.molgenis.service.RuntimePropertyService

deleteById(Integer) - Method in class org.molgenis.service.SpeciesService

deleteById(Integer) - Method in class org.molgenis.service.StringValueService

deleteById(Integer) - Method in class org.molgenis.service.StudyDataRequestService

deleteById(Integer) - Method in class org.molgenis.service.TextValueService

deleteById(Integer) - Method in class org.molgenis.service.ValueService

deleteById(Integer) - Method in class org.molgenis.service.XrefValueService

deleteCategoricalValue(Integer) - Method in class org.molgenis.controller.CategoricalValueController

deleteCategoricalValuePost(Integer) - Method in class org.molgenis.controller.CategoricalValueController

deleteCategory(Integer) - Method in class org.molgenis.controller.CategoryController

deleteCategoryPost(Integer) - Method in class org.molgenis.controller.CategoryController

deleteCharacteristic(Integer) - Method in class org.molgenis.controller.CharacteristicController

deleteCharacteristicPost(Integer) - Method in class org.molgenis.controller.CharacteristicController

deleteDataSet(Integer) - Method in class org.molgenis.controller.DataSetController

deleteDataSetPost(Integer) - Method in class org.molgenis.controller.DataSetController

deleteDateTimeValue(Integer) - Method in class org.molgenis.controller.DateTimeValueController

deleteDateTimeValuePost(Integer) - Method in class org.molgenis.controller.DateTimeValueController

deleteDateValue(Integer) - Method in class org.molgenis.controller.DateValueController

deleteDateValuePost(Integer) - Method in class org.molgenis.controller.DateValueController

deleteDecimalValue(Integer) - Method in class org.molgenis.controller.DecimalValueController

deleteDecimalValuePost(Integer) - Method in class org.molgenis.controller.DecimalValueController

deleteEmailValue(Integer) - Method in class org.molgenis.controller.EmailValueController

deleteEmailValuePost(Integer) - Method in class org.molgenis.controller.EmailValueController

deleteHtmlValue(Integer) - Method in class org.molgenis.controller.HtmlValueController

deleteHtmlValuePost(Integer) - Method in class org.molgenis.controller.HtmlValueController

deleteHyperlinkValue(Integer) - Method in class org.molgenis.controller.HyperlinkValueController

deleteHyperlinkValuePost(Integer) - Method in class org.molgenis.controller.HyperlinkValueController

deleteIndividual(Integer) - Method in class org.molgenis.controller.IndividualController

deleteIndividualPost(Integer) - Method in class org.molgenis.controller.IndividualController

deleteInstitute(Integer) - Method in class org.molgenis.controller.InstituteController

deleteInstitutePost(Integer) - Method in class org.molgenis.controller.InstituteController

deleteIntValue(Integer) - Method in class org.molgenis.controller.IntValueController

deleteIntValuePost(Integer) - Method in class org.molgenis.controller.IntValueController

deleteLongValue(Integer) - Method in class org.molgenis.controller.LongValueController

deleteLongValuePost(Integer) - Method in class org.molgenis.controller.LongValueController

deleteMolgenisFile(Integer) - Method in class org.molgenis.controller.MolgenisFileController

deleteMolgenisFilePost(Integer) - Method in class org.molgenis.controller.MolgenisFileController

deleteMrefValue(Integer) - Method in class org.molgenis.controller.MrefValueController

deleteMrefValuePost(Integer) - Method in class org.molgenis.controller.MrefValueController

deleteObservableFeature(Integer) - Method in class org.molgenis.controller.ObservableFeatureController

deleteObservableFeaturePost(Integer) - Method in class org.molgenis.controller.ObservableFeatureController

deleteObservationSet(Integer) - Method in class org.molgenis.controller.ObservationSetController

deleteObservationSetPost(Integer) - Method in class org.molgenis.controller.ObservationSetController

deleteObservationTarget(Integer) - Method in class org.molgenis.controller.ObservationTargetController

deleteObservationTargetPost(Integer) - Method in class org.molgenis.controller.ObservationTargetController

deleteObservedValue(Integer) - Method in class org.molgenis.controller.ObservedValueController

deleteObservedValuePost(Integer) - Method in class org.molgenis.controller.ObservedValueController

deleteOntology(Integer) - Method in class org.molgenis.controller.OntologyController

deleteOntologyPost(Integer) - Method in class org.molgenis.controller.OntologyController

deleteOntologyTerm(Integer) - Method in class org.molgenis.controller.OntologyTermController

deleteOntologyTermPost(Integer) - Method in class org.molgenis.controller.OntologyTermController

deletePanel(Integer) - Method in class org.molgenis.controller.PanelController

deletePanelPost(Integer) - Method in class org.molgenis.controller.PanelController

deletePanelSource(Integer) - Method in class org.molgenis.controller.PanelSourceController

deletePanelSourcePost(Integer) - Method in class org.molgenis.controller.PanelSourceController

deletePerson(Integer) - Method in class org.molgenis.controller.PersonController

deletePersonPost(Integer) - Method in class org.molgenis.controller.PersonController

deletePersonRole(Integer) - Method in class org.molgenis.controller.PersonRoleController

deletePersonRolePost(Integer) - Method in class org.molgenis.controller.PersonRoleController

deleteProtocol(Integer) - Method in class org.molgenis.controller.ProtocolController

deleteProtocolPost(Integer) - Method in class org.molgenis.controller.ProtocolController

deleteRuntimeProperty(Integer) - Method in class org.molgenis.controller.RuntimePropertyController

deleteRuntimePropertyPost(Integer) - Method in class org.molgenis.controller.RuntimePropertyController

deleteSpecies(Integer) - Method in class org.molgenis.controller.SpeciesController

deleteSpeciesPost(Integer) - Method in class org.molgenis.controller.SpeciesController

deleteStringValue(Integer) - Method in class org.molgenis.controller.StringValueController

deleteStringValuePost(Integer) - Method in class org.molgenis.controller.StringValueController

deleteStudyDataRequest(Integer) - Method in class org.molgenis.controller.StudyDataRequestController

deleteStudyDataRequestPost(Integer) - Method in class org.molgenis.controller.StudyDataRequestController

deleteTextValue(Integer) - Method in class org.molgenis.controller.TextValueController

deleteTextValuePost(Integer) - Method in class org.molgenis.controller.TextValueController

deleteValue(Integer) - Method in class org.molgenis.controller.ValueController

deleteValuePost(Integer) - Method in class org.molgenis.controller.ValueController

deleteXrefValue(Integer) - Method in class org.molgenis.controller.XrefValueController

deleteXrefValuePost(Integer) - Method in class org.molgenis.controller.XrefValueController

departmentOrDivision - Variable in class org.molgenis.jaxb.Address

describesPatientAge - Variable in class org.molgenis.jaxb.PatientAgeGroupAtCollection

Diagnosis - Class in org.molgenis.jaxb

Java class for Diagnosis complex type.

Diagnosis() - Constructor for class org.molgenis.jaxb.Diagnosis

diagnosis - Variable in class org.molgenis.jaxb.ParticipantCollectionSummary.Receives

diagnosisType - Variable in class org.molgenis.jaxb.Diagnosis

E

emailAddress - Variable in class org.molgenis.jaxb.Person

EmailValueController - Class in org.molgenis.controller

EmailValueController() - Constructor for class org.molgenis.controller.EmailValueController

EmailValueSecurityDecorator<E extends EmailValue> - Class in org.molgenis.omx.observ.value.db

TODO add column level security filters

EmailValueSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.value.db.EmailValueSecurityDecorator

EmailValueService - Class in org.molgenis.service

EmailValueService() - Constructor for class org.molgenis.service.EmailValueService

emptySample() - Method in class org.molgenis.gids.tools.convertor.SampleConverter

endDate - Variable in class org.molgenis.jaxb.CollectionProtocol

enrolls - Variable in class org.molgenis.jaxb.CollectionProtocol

EntitiesImporterImpl - Class in org.molgenis

EntitiesImporterImpl(Database) - Constructor for class org.molgenis.EntitiesImporterImpl

EntitiesMenu - Class in org.molgenis.ui

EntitiesMenu(ScreenController<?>) - Constructor for class org.molgenis.ui.EntitiesMenu

EntitiesValidatorImpl - Class in org.molgenis

EntitiesValidatorImpl(Database) - Constructor for class org.molgenis.EntitiesValidatorImpl

EntityExplorerPluginPlugin - Class in org.molgenis.ui

EntityExplorerPluginPlugin(ScreenController<?>) - Constructor for class org.molgenis.ui.EntityExplorerPluginPlugin

entityManagerFactory() - Method in class org.molgenis.DatabaseConfig

entityName - Variable in class org.molgenis.jaxb.Address

entityNumber - Variable in class org.molgenis.jaxb.Address

ethnicity - Variable in class org.molgenis.jaxb.ParticipantCollectionSummary

ExcelEntityExporter - Class in org.molgenis

ExcelEntityExporter() - Constructor for class org.molgenis.ExcelEntityExporter

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.auth.db.InstituteSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.auth.db.MolgenisGroupSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.auth.db.MolgenisPermissionSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.auth.db.MolgenisRoleGroupLinkSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.auth.db.MolgenisRoleSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.auth.db.MolgenisUserSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.auth.db.PersonRoleSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.auth.db.PersonSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.core.db.MolgenisEntitySecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.core.db.MolgenisFileSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.core.db.RuntimePropertySecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.filter.db.StudyDataRequestSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.db.CategorySecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.db.CharacteristicSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.db.DataSetSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.db.ObservableFeatureSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.db.ObservationSetSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.db.ObservationTargetSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.db.ObservedValueSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.db.ProtocolSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.AccessionSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.IndividualSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.OntologySecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.OntologyTermSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.PanelSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.PanelSourceSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.SpeciesSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.BoolValueSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.CategoricalValueSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.DateTimeValueSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.DateValueSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.DecimalValueSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.EmailValueSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.HtmlValueSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.HyperlinkValueSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.IntValueSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.LongValueSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.MrefValueSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.StringValueSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.TextValueSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.ValueSecurityDecorator

executeAdd(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.XrefValueSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.auth.db.InstituteSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.auth.db.MolgenisGroupSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.auth.db.MolgenisPermissionSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.auth.db.MolgenisRoleGroupLinkSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.auth.db.MolgenisRoleSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.auth.db.MolgenisUserSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.auth.db.PersonRoleSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.auth.db.PersonSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.core.db.MolgenisEntitySecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.core.db.MolgenisFileSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.core.db.RuntimePropertySecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.filter.db.StudyDataRequestSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.db.CategorySecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.db.CharacteristicSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.db.DataSetSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.db.ObservableFeatureSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.db.ObservationSetSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.db.ObservationTargetSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.db.ObservedValueSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.db.ProtocolSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.AccessionSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.IndividualSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.OntologySecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.OntologyTermSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.PanelSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.PanelSourceSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.SpeciesSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.BoolValueSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.CategoricalValueSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.DateTimeValueSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.DateValueSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.DecimalValueSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.EmailValueSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.HtmlValueSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.HyperlinkValueSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.IntValueSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.LongValueSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.MrefValueSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.StringValueSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.TextValueSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.ValueSecurityDecorator

executeRemove(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.XrefValueSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.auth.db.InstituteSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.auth.db.MolgenisGroupSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.auth.db.MolgenisPermissionSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.auth.db.MolgenisRoleGroupLinkSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.auth.db.MolgenisRoleSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.auth.db.MolgenisUserSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.auth.db.PersonRoleSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.auth.db.PersonSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.core.db.MolgenisEntitySecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.core.db.MolgenisFileSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.core.db.RuntimePropertySecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.filter.db.StudyDataRequestSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.db.CategorySecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.db.CharacteristicSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.db.DataSetSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.db.ObservableFeatureSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.db.ObservationSetSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.db.ObservationTargetSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.db.ObservedValueSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.db.ProtocolSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.AccessionSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.IndividualSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.OntologySecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.OntologyTermSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.PanelSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.PanelSourceSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.target.db.SpeciesSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.BoolValueSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.CategoricalValueSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.DateTimeValueSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.DateValueSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.DecimalValueSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.EmailValueSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.HtmlValueSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.HyperlinkValueSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.IntValueSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.LongValueSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.MrefValueSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.StringValueSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.TextValueSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.ValueSecurityDecorator

executeUpdate(List<? extends E>) - Method in class org.molgenis.omx.observ.value.db.XrefValueSecurityDecorator

exportAccession(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export Accession to file.

exportAccession(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportAll(File, Database) - Method in class org.molgenis.CsvEntityExporter

Default export all using a target directory and a database to export

exportAll(File, Database, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

Export all using a set of QueryRules used for all entities if applicable to that entity

exportAll(File, Database, boolean) - Method in class org.molgenis.CsvEntityExporter

Export all where a boolean skip autoid fields forces an ignore of the auto id field ("id")

exportAll(File, Database, boolean, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

Export all with both a boolean skipAutoId and a set of QueryRules to specify both the skipping of auto id, and applying of a filter

exportAll(File, List<? extends Entity>...) - Method in class org.molgenis.CsvEntityExporter

exportAll(File, Database) - Method in class org.molgenis.ExcelEntityExporter

Default export all using a target file and a database to export

exportAll(File, Database, QueryRule...) - Method in class org.molgenis.ExcelEntityExporter

Export all using a set of QueryRules used for all entities if applicable to that entity

exportAll(File, Database, boolean) - Method in class org.molgenis.ExcelEntityExporter

Export all where a boolean skipAutoId forces an ignore of the auto id field ("id")

exportAll(File, Database, boolean, QueryRule...) - Method in class org.molgenis.ExcelEntityExporter

Export all with both a boolean skipAutoId and a set of QueryRules to specify both the skipping of auto id, and applying of a filter

exportBoolValue(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export BoolValue to file.

exportBoolValue(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportCategoricalValue(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export CategoricalValue to file.

exportCategoricalValue(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportCategory(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export Category to file.

exportCategory(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportCharacteristic(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export Characteristic to file.

exportCharacteristic(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportDataSet(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export DataSet to file.

exportDataSet(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportDateTimeValue(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export DateTimeValue to file.

exportDateTimeValue(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportDateValue(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export DateValue to file.

exportDateValue(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportDecimalValue(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export DecimalValue to file.

exportDecimalValue(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportEmailValue(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export EmailValue to file.

exportEmailValue(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportHtmlValue(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export HtmlValue to file.

exportHtmlValue(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportHyperlinkValue(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export HyperlinkValue to file.

exportHyperlinkValue(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportIndividual(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export Individual to file.

exportIndividual(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportInstitute(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export Institute to file.

exportInstitute(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportIntValue(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export IntValue to file.

exportIntValue(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportLongValue(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export LongValue to file.

exportLongValue(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportMolgenisEntity(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export MolgenisEntity to file.

exportMolgenisEntity(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportMolgenisFile(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export MolgenisFile to file.

exportMolgenisFile(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportMolgenisGroup(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export MolgenisGroup to file.

exportMolgenisGroup(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportMolgenisPermission(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export MolgenisPermission to file.

exportMolgenisPermission(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportMolgenisRole(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export MolgenisRole to file.

exportMolgenisRole(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportMolgenisRoleGroupLink(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export MolgenisRoleGroupLink to file.

exportMolgenisRoleGroupLink(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportMolgenisUser(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export MolgenisUser to file.

exportMolgenisUser(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportMrefValue(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export MrefValue to file.

exportMrefValue(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportObservableFeature(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export ObservableFeature to file.

exportObservableFeature(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportObservationSet(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export ObservationSet to file.

exportObservationSet(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportObservationTarget(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export ObservationTarget to file.

exportObservationTarget(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportObservedValue(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export ObservedValue to file.

exportObservedValue(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportOntology(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export Ontology to file.

exportOntology(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportOntologyTerm(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export OntologyTerm to file.

exportOntologyTerm(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportPanel(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export Panel to file.

exportPanel(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportPanelSource(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export PanelSource to file.

exportPanelSource(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportPerson(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export Person to file.

exportPerson(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportPersonRole(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export PersonRole to file.

exportPersonRole(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportProtocol(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export Protocol to file.

exportProtocol(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportRegular(File, Database, boolean) - Method in class org.molgenis.CsvEntityExporter

Export without system tables.

exportRegular(File, Database, boolean, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

Export without system tables.

exportRuntimeProperty(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export RuntimeProperty to file.

exportRuntimeProperty(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportSpecial(File, Database, List<Class<? extends Entity>>, boolean) - Method in class org.molgenis.CsvEntityExporter

Export while excluding or including certain entity types.

exportSpecial(File, Database, boolean, List<Class<? extends Entity>>, boolean, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

Export while excluding or including certain entity types.

exportSpecies(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export Species to file.

exportSpecies(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportStringValue(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export StringValue to file.

exportStringValue(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportStudyDataRequest(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export StudyDataRequest to file.

exportStudyDataRequest(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportTextValue(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export TextValue to file.

exportTextValue(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportValue(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export Value to file.

exportValue(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

exportXrefValue(Database, File, List<String>, QueryRule...) - Method in class org.molgenis.CsvEntityExporter

export XrefValue to file.

exportXrefValue(List<? extends Entity>, File) - Method in class org.molgenis.CsvEntityExporter

F

FeatureFormController - Class in org.molgenis.ui

FeatureFormController() - Constructor for class org.molgenis.ui.FeatureFormController

FeatureFormController(ScreenController<?>) - Constructor for class org.molgenis.ui.FeatureFormController

fileStore() - Method in class org.molgenis.omx.WebAppConfig

find(QueryRule...) - Method in class org.molgenis.omx.auth.db.InstituteSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.auth.db.InstituteSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.auth.db.InstituteSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.auth.db.MolgenisGroupSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.auth.db.MolgenisGroupSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.auth.db.MolgenisGroupSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.auth.db.MolgenisPermissionSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.auth.db.MolgenisPermissionSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.auth.db.MolgenisPermissionSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.auth.db.MolgenisRoleGroupLinkSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.auth.db.MolgenisRoleGroupLinkSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.auth.db.MolgenisRoleGroupLinkSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.auth.db.MolgenisRoleSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.auth.db.MolgenisRoleSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.auth.db.MolgenisRoleSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.auth.db.MolgenisUserSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.auth.db.MolgenisUserSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.auth.db.MolgenisUserSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.auth.db.PersonRoleSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.auth.db.PersonRoleSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.auth.db.PersonRoleSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.auth.db.PersonSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.auth.db.PersonSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.auth.db.PersonSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.core.db.MolgenisEntitySecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.core.db.MolgenisEntitySecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.core.db.MolgenisEntitySecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.core.db.MolgenisFileSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.core.db.MolgenisFileSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.core.db.MolgenisFileSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.core.db.RuntimePropertySecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.core.db.RuntimePropertySecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.core.db.RuntimePropertySecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.filter.db.StudyDataRequestSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.filter.db.StudyDataRequestSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.filter.db.StudyDataRequestSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.db.CategorySecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.db.CategorySecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.db.CategorySecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.db.CharacteristicSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.db.CharacteristicSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.db.CharacteristicSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.db.DataSetSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.db.DataSetSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.db.DataSetSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.db.ObservableFeatureSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.db.ObservableFeatureSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.db.ObservableFeatureSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.db.ObservationSetSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.db.ObservationSetSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.db.ObservationSetSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.db.ObservationTargetSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.db.ObservationTargetSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.db.ObservationTargetSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.db.ObservedValueSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.db.ObservedValueSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.db.ObservedValueSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.db.ProtocolSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.db.ProtocolSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.db.ProtocolSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.target.db.AccessionSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.target.db.AccessionSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.target.db.AccessionSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.target.db.IndividualSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.target.db.IndividualSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.target.db.IndividualSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.target.db.OntologySecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.target.db.OntologySecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.target.db.OntologySecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.target.db.OntologyTermSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.target.db.OntologyTermSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.target.db.OntologyTermSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.target.db.PanelSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.target.db.PanelSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.target.db.PanelSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.target.db.PanelSourceSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.target.db.PanelSourceSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.target.db.PanelSourceSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.target.db.SpeciesSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.target.db.SpeciesSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.target.db.SpeciesSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.BoolValueSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.value.db.BoolValueSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.BoolValueSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.CategoricalValueSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.value.db.CategoricalValueSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.CategoricalValueSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.DateTimeValueSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.value.db.DateTimeValueSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.DateTimeValueSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.DateValueSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.value.db.DateValueSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.DateValueSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.DecimalValueSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.value.db.DecimalValueSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.DecimalValueSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.EmailValueSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.value.db.EmailValueSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.EmailValueSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.HtmlValueSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.value.db.HtmlValueSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.HtmlValueSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.HyperlinkValueSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.value.db.HyperlinkValueSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.HyperlinkValueSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.IntValueSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.value.db.IntValueSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.IntValueSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.LongValueSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.value.db.LongValueSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.LongValueSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.MrefValueSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.value.db.MrefValueSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.MrefValueSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.StringValueSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.value.db.StringValueSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.StringValueSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.TextValueSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.value.db.TextValueSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.TextValueSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.ValueSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.value.db.ValueSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.ValueSecurityDecorator

find(QueryRule...) - Method in class org.molgenis.omx.observ.value.db.XrefValueSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.observ.value.db.XrefValueSecurityDecorator

find(TupleWriter, List<String>, QueryRule[]) - Method in class org.molgenis.omx.observ.value.db.XrefValueSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.auth.db.InstituteSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.auth.db.MolgenisGroupSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.auth.db.MolgenisPermissionSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.auth.db.MolgenisRoleGroupLinkSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.auth.db.MolgenisRoleSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.auth.db.MolgenisUserSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.auth.db.PersonRoleSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.auth.db.PersonSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.core.db.MolgenisEntitySecurityDecorator

findById(Object) - Method in class org.molgenis.omx.core.db.MolgenisFileSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.core.db.RuntimePropertySecurityDecorator

findById(Object) - Method in class org.molgenis.omx.filter.db.StudyDataRequestSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.db.CategorySecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.db.CharacteristicSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.db.DataSetSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.db.ObservableFeatureSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.db.ObservationSetSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.db.ObservationTargetSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.db.ObservedValueSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.db.ProtocolSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.target.db.AccessionSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.target.db.IndividualSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.target.db.OntologySecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.target.db.OntologyTermSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.target.db.PanelSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.target.db.PanelSourceSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.target.db.SpeciesSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.value.db.BoolValueSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.value.db.CategoricalValueSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.value.db.DateTimeValueSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.value.db.DateValueSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.value.db.DecimalValueSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.value.db.EmailValueSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.value.db.HtmlValueSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.value.db.HyperlinkValueSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.value.db.IntValueSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.value.db.LongValueSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.value.db.MrefValueSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.value.db.StringValueSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.value.db.TextValueSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.value.db.ValueSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.observ.value.db.XrefValueSecurityDecorator

firstName - Variable in class org.molgenis.jaxb.Person

floorOrPremises - Variable in class org.molgenis.jaxb.Address

freeMarkerConfigurer() - Method in class org.molgenis.omx.WebAppConfig

Configure freemarker.

FrontController - Class in org.molgenis.servlet

FrontController() - Constructor for class org.molgenis.servlet.FrontController

fullName - Variable in class org.molgenis.jaxb.Person

G

gender - Variable in class org.molgenis.jaxb.ParticipantCollectionSummary

getAnatomicSource() - Method in class org.molgenis.jaxb.SpecimenCollectionSummary

Gets the value of the anatomicSource property.

getBackground() - Method in class org.molgenis.omx.plugins.BackgroundPlugin.BackgroundModel

getCity() - Method in class org.molgenis.jaxb.Address

Gets the value of the city property.

getCollectionProtocol() - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile.ProvidesInformationTo

Gets the value of the collectionProtocol property.

getCollectionProtocol() - Method in class org.molgenis.jaxb.CbmNode.Protocols

Gets the value of the collectionProtocol property.

getCollectionProtocol() - Method in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile.RestrictsAccessTo

Gets the value of the collectionProtocol property.

getContact() - Method in class org.molgenis.omx.plugins.ContactPlugin.ContactModel

getContext() - Method in class org.molgenis.servlet.MolgenisContextListener

getCountry() - Method in class org.molgenis.jaxb.Address

Gets the value of the country property.

getCustomHtmlHeaders() - Method in class org.molgenis.omx.plugins.HeaderPlugin

getDateLastUpdated() - Method in class org.molgenis.jaxb.CollectionProtocol

Gets the value of the dateLastUpdated property.

getDateType() - Method in class org.molgenis.gids.tools.convertor.MakeObservableFeature

getDepartmentOrDivision() - Method in class org.molgenis.jaxb.Address

Gets the value of the departmentOrDivision property.

getDescribesPatientAge() - Method in class org.molgenis.jaxb.PatientAgeGroupAtCollection

Gets the value of the describesPatientAge property.

getDescription() - Method in class org.molgenis.gids.tools.convertor.MakeObservableFeature

getDiagnosis() - Method in class org.molgenis.jaxb.ParticipantCollectionSummary.Receives

Gets the value of the diagnosis property.

getDiagnosisType() - Method in class org.molgenis.jaxb.Diagnosis

Gets the value of the diagnosisType property.

getEmailAddress() - Method in class org.molgenis.jaxb.Person

Gets the value of the emailAddress property.

getEndDate() - Method in class org.molgenis.jaxb.CollectionProtocol

Gets the value of the endDate property.

getEnrolls() - Method in class org.molgenis.jaxb.CollectionProtocol

Gets the value of the enrolls property.

getEntity() - Method in class org.molgenis.service.AccessionService

getEntity() - Method in class org.molgenis.service.BoolValueService

getEntity() - Method in class org.molgenis.service.CategoricalValueService

getEntity() - Method in class org.molgenis.service.CategoryService

getEntity() - Method in class org.molgenis.service.CharacteristicService

getEntity() - Method in class org.molgenis.service.DataSetService

getEntity() - Method in class org.molgenis.service.DateTimeValueService

getEntity() - Method in class org.molgenis.service.DateValueService

getEntity() - Method in class org.molgenis.service.DecimalValueService

getEntity() - Method in class org.molgenis.service.EmailValueService

getEntity() - Method in class org.molgenis.service.HtmlValueService

getEntity() - Method in class org.molgenis.service.HyperlinkValueService

getEntity() - Method in class org.molgenis.service.IndividualService

getEntity() - Method in class org.molgenis.service.InstituteService

getEntity() - Method in class org.molgenis.service.IntValueService

getEntity() - Method in class org.molgenis.service.LongValueService

getEntity() - Method in class org.molgenis.service.MolgenisFileService

getEntity() - Method in class org.molgenis.service.MrefValueService

getEntity() - Method in class org.molgenis.service.ObservableFeatureService

getEntity() - Method in class org.molgenis.service.ObservationSetService

getEntity() - Method in class org.molgenis.service.ObservationTargetService

getEntity() - Method in class org.molgenis.service.ObservedValueService

getEntity() - Method in class org.molgenis.service.OntologyService

getEntity() - Method in class org.molgenis.service.OntologyTermService

getEntity() - Method in class org.molgenis.service.PanelService

getEntity() - Method in class org.molgenis.service.PanelSourceService

getEntity() - Method in class org.molgenis.service.PersonRoleService

getEntity() - Method in class org.molgenis.service.PersonService

getEntity() - Method in class org.molgenis.service.ProtocolService

getEntity() - Method in class org.molgenis.service.RuntimePropertyService

getEntity() - Method in class org.molgenis.service.SpeciesService

getEntity() - Method in class org.molgenis.service.StringValueService

getEntity() - Method in class org.molgenis.service.StudyDataRequestService

getEntity() - Method in class org.molgenis.service.TextValueService

getEntity() - Method in class org.molgenis.service.ValueService

getEntity() - Method in class org.molgenis.service.XrefValueService

getEntityClass() - Method in class org.molgenis.ui.CategoryFormController

getEntityClass() - Method in class org.molgenis.ui.DataSetFormController

getEntityClass() - Method in class org.molgenis.ui.FeatureFormController

getEntityClass() - Method in class org.molgenis.ui.MolgenisEntityFormController

getEntityClass() - Method in class org.molgenis.ui.MolgenisGroupFormController

getEntityClass() - Method in class org.molgenis.ui.MolgenisPermissionFormController

getEntityClass() - Method in class org.molgenis.ui.MolgenisRoleGroupLinkFormController

getEntityClass() - Method in class org.molgenis.ui.MolgenisUserFormController

getEntityClass() - Method in class org.molgenis.ui.ProtocolFormController

getEntityClass() - Method in class org.molgenis.ui.RuntimePropertyFormController

getEntityClass() - Method in class org.molgenis.ui.StudyDataRequestFormController

getEntityClass() - Method in class org.molgenis.ui.ValueFormController

getEntityName() - Method in class org.molgenis.jaxb.Address

Gets the value of the entityName property.

getEntityNumber() - Method in class org.molgenis.jaxb.Address

Gets the value of the entityNumber property.

getEthnicity() - Method in class org.molgenis.jaxb.ParticipantCollectionSummary

Gets the value of the ethnicity property.

getFeatures_Identifier() - Method in class org.molgenis.gids.tools.convertor.MakeEntityNameAndIdentifier

getField(String) - Method in class org.molgenis.ui.CategoryFormController

getField(String) - Method in class org.molgenis.ui.DataSetFormController

getField(String) - Method in class org.molgenis.ui.FeatureFormController

getField(String) - Method in class org.molgenis.ui.MolgenisEntityFormController

getField(String) - Method in class org.molgenis.ui.MolgenisGroupFormController

getField(String) - Method in class org.molgenis.ui.MolgenisPermissionFormController

getField(String) - Method in class org.molgenis.ui.MolgenisRoleGroupLinkFormController

getField(String) - Method in class org.molgenis.ui.MolgenisUserFormController

getField(String) - Method in class org.molgenis.ui.ProtocolFormController

getField(String) - Method in class org.molgenis.ui.RuntimePropertyFormController

getField(String) - Method in class org.molgenis.ui.StudyDataRequestFormController

getField(String) - Method in class org.molgenis.ui.ValueFormController

getFirstName() - Method in class org.molgenis.jaxb.Person

Gets the value of the firstName property.

getFloorOrPremises() - Method in class org.molgenis.jaxb.Address

Gets the value of the floorOrPremises property.

getFullName() - Method in class org.molgenis.jaxb.Person

Gets the value of the fullName property.

getGender() - Method in class org.molgenis.jaxb.ParticipantCollectionSummary

Gets the value of the gender property.

getHash() - Method in class org.molgenis.gids.tools.compare.ValidationFile

getHeaders() - Method in class org.molgenis.ui.CategoryFormController

getHeaders() - Method in class org.molgenis.ui.DataSetFormController

getHeaders() - Method in class org.molgenis.ui.FeatureFormController

getHeaders() - Method in class org.molgenis.ui.MolgenisEntityFormController

getHeaders() - Method in class org.molgenis.ui.MolgenisGroupFormController

getHeaders() - Method in class org.molgenis.ui.MolgenisPermissionFormController

getHeaders() - Method in class org.molgenis.ui.MolgenisRoleGroupLinkFormController

getHeaders() - Method in class org.molgenis.ui.MolgenisUserFormController

getHeaders() - Method in class org.molgenis.ui.ProtocolFormController

getHeaders() - Method in class org.molgenis.ui.RuntimePropertyFormController

getHeaders() - Method in class org.molgenis.ui.StudyDataRequestFormController

getHeaders() - Method in class org.molgenis.ui.ValueFormController

getHomeHtml() - Method in class org.molgenis.omx.plugins.HomePlugin.HomeModel

getHomepageURL() - Method in class org.molgenis.jaxb.Institution

Gets the value of the homepageURL property.

getHrefLogo() - Method in class org.molgenis.omx.plugins.HeaderPlugin.HeaderModel

getId() - Method in class org.molgenis.jaxb.Address

Gets the value of the id property.

getId() - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Gets the value of the id property.

getId() - Method in class org.molgenis.jaxb.CollectionProtocol

Gets the value of the id property.

getId() - Method in class org.molgenis.jaxb.Diagnosis

Gets the value of the id property.

getId() - Method in class org.molgenis.jaxb.Organization

Gets the value of the id property.

getId() - Method in class org.molgenis.jaxb.ParticipantCollectionSummary

Gets the value of the id property.

getId() - Method in class org.molgenis.jaxb.PatientAgeGroupAtCollection

Gets the value of the id property.

getId() - Method in class org.molgenis.jaxb.Person

Gets the value of the id property.

getId() - Method in class org.molgenis.jaxb.Preservation

Gets the value of the id property.

getId() - Method in class org.molgenis.jaxb.Race

Gets the value of the id property.

getId() - Method in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

Gets the value of the id property.

getId() - Method in class org.molgenis.jaxb.SpecimenCollectionSummary

Gets the value of the id property.

getIdentifier() - Method in class org.molgenis.gids.tools.convertor.MakeEntityNameAndIdentifier

getIdentifier() - Method in class org.molgenis.gids.tools.convertor.MakeObservableFeature

getIdentifier() - Method in class org.molgenis.gids.tools.convertor.MakeObservationTarget

getIdentifier() - Method in class org.molgenis.jaxb.CollectionProtocol

Gets the value of the identifier property.

getInputs(Category, boolean) - Method in class org.molgenis.ui.CategoryFormController

getInputs(DataSet, boolean) - Method in class org.molgenis.ui.DataSetFormController

getInputs(ObservableFeature, boolean) - Method in class org.molgenis.ui.FeatureFormController

getInputs(MolgenisEntity, boolean) - Method in class org.molgenis.ui.MolgenisEntityFormController

getInputs(MolgenisGroup, boolean) - Method in class org.molgenis.ui.MolgenisGroupFormController

getInputs(MolgenisPermission, boolean) - Method in class org.molgenis.ui.MolgenisPermissionFormController

getInputs(MolgenisRoleGroupLink, boolean) - Method in class org.molgenis.ui.MolgenisRoleGroupLinkFormController

getInputs(MolgenisUser, boolean) - Method in class org.molgenis.ui.MolgenisUserFormController

getInputs(Protocol, boolean) - Method in class org.molgenis.ui.ProtocolFormController

getInputs(RuntimeProperty, boolean) - Method in class org.molgenis.ui.RuntimePropertyFormController

getInputs(StudyDataRequest, boolean) - Method in class org.molgenis.ui.StudyDataRequestFormController

getInputs(ObservedValue, boolean) - Method in class org.molgenis.ui.ValueFormController

getInstance() - Static method in class org.molgenis.servlet.MolgenisContextListener

getInstitution() - Method in class org.molgenis.jaxb.CollectionProtocol.ResidesAt

Gets the value of the institution property.

getIsAppliedTo() - Method in class org.molgenis.jaxb.Preservation

Gets the value of the isAppliedTo property.

getIsAssignedTo() - Method in class org.molgenis.jaxb.CollectionProtocol

Gets the value of the isAssignedTo property.

getIsClassifiedBy() - Method in class org.molgenis.jaxb.ParticipantCollectionSummary

Gets the value of the isClassifiedBy property.

getIsConstrainedBy() - Method in class org.molgenis.jaxb.CollectionProtocol

Gets the value of the isConstrainedBy property.

getIsLocatedAt() - Method in class org.molgenis.jaxb.SpecimenCollectionContact

Gets the value of the isLocatedAt property.

getLastName() - Method in class org.molgenis.jaxb.Person

Gets the value of the lastName property.

getListFiles() - Method in class org.molgenis.cbm.CbmToOmxConverter

getListOfHeaders() - Method in class org.molgenis.gids.tools.compare.ValidationFile

getMakesAvailable() - Method in class org.molgenis.jaxb.CollectionProtocol

Gets the value of the makesAvailable property.

getMiddleNameOrInitial() - Method in class org.molgenis.jaxb.Person

Gets the value of the middleNameOrInitial property.

getMyModel() - Method in class org.molgenis.omx.plugins.BackgroundPlugin

getMyModel() - Method in class org.molgenis.omx.plugins.ContactPlugin

getMyModel() - Method in class org.molgenis.omx.plugins.HeaderPlugin

getMyModel() - Method in class org.molgenis.omx.plugins.HomePlugin

getMyModel() - Method in class org.molgenis.omx.plugins.NewsPlugin

getMyModel() - Method in class org.molgenis.omx.plugins.ReferencesPlugin

getName() - Method in class org.molgenis.gids.tools.convertor.MakeEntityNameAndIdentifier

getName() - Method in class org.molgenis.gids.tools.convertor.MakeObservableFeature

getName() - Method in class org.molgenis.gids.tools.convertor.MakeObservationTarget

getName() - Method in class org.molgenis.jaxb.CollectionProtocol

Gets the value of the name property.

getName() - Method in class org.molgenis.jaxb.Organization

Gets the value of the name property.

getNews() - Method in class org.molgenis.omx.plugins.NewsPlugin.NewsModel

getOutputDir() - Method in class org.molgenis.cbm.CbmToOmxConverter

getParticipantCollectionSummary() - Method in class org.molgenis.jaxb.CollectionProtocol.Enrolls

Gets the value of the participantCollectionSummary property.

getParticipantCount() - Method in class org.molgenis.jaxb.ParticipantCollectionSummary

Gets the value of the participantCount property.

getPatientAgeGroupHigh() - Method in class org.molgenis.jaxb.PatientAgeGroupAtCollection

Gets the value of the patientAgeGroupHigh property.

getPatientAgeGroupLow() - Method in class org.molgenis.jaxb.PatientAgeGroupAtCollection

Gets the value of the patientAgeGroupLow property.

getPhone() - Method in class org.molgenis.jaxb.SpecimenCollectionContact

Gets the value of the phone property.

getPostOfficeBox() - Method in class org.molgenis.jaxb.Address

Gets the value of the postOfficeBox property.

getPreservationType() - Method in class org.molgenis.jaxb.Preservation

Gets the value of the preservationType property.

getProtocols() - Method in class org.molgenis.jaxb.CbmNode

Gets the value of the protocols property.

getProvides() - Method in class org.molgenis.jaxb.ParticipantCollectionSummary

Gets the value of the provides property.

getProvidesInformationTo() - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Gets the value of the providesInformationTo property.

getQualifiesPatientAgeAtSpecimenCollection() - Method in class org.molgenis.jaxb.SpecimenCollectionSummary

Gets the value of the qualifiesPatientAgeAtSpecimenCollection property.

getRace() - Method in class org.molgenis.jaxb.ParticipantCollectionSummary.IsClassifiedBy

Gets the value of the race property.

getRace() - Method in class org.molgenis.jaxb.Race

Gets the value of the race property.

getReceives() - Method in class org.molgenis.jaxb.ParticipantCollectionSummary

Gets the value of the receives property.

getReferences() - Method in class org.molgenis.omx.plugins.ReferencesPlugin.ReferencesModel

getResidesAt() - Method in class org.molgenis.jaxb.CollectionProtocol

Gets the value of the residesAt property.

getRestrictsAccessTo() - Method in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

Gets the value of the restrictsAccessTo property.

getSearchField(String) - Method in class org.molgenis.ui.CategoryFormController

getSearchField(String) - Method in class org.molgenis.ui.DataSetFormController

getSearchField(String) - Method in class org.molgenis.ui.FeatureFormController

getSearchField(String) - Method in class org.molgenis.ui.MolgenisEntityFormController

getSearchField(String) - Method in class org.molgenis.ui.MolgenisGroupFormController

getSearchField(String) - Method in class org.molgenis.ui.MolgenisPermissionFormController

getSearchField(String) - Method in class org.molgenis.ui.MolgenisRoleGroupLinkFormController

getSearchField(String) - Method in class org.molgenis.ui.MolgenisUserFormController

getSearchField(String) - Method in class org.molgenis.ui.ProtocolFormController

getSearchField(String) - Method in class org.molgenis.ui.RuntimePropertyFormController

getSearchField(String) - Method in class org.molgenis.ui.StudyDataRequestFormController

getSearchField(String) - Method in class org.molgenis.ui.ValueFormController

getSource() - Method in class org.molgenis.jaxb.CbmNode

Gets the value of the source property.

getSpecimenCollectionSummary() - Method in class org.molgenis.jaxb.ParticipantCollectionSummary.Provides

Gets the value of the specimenCollectionSummary property.

getSpecimenCollectionSummary() - Method in class org.molgenis.jaxb.PatientAgeGroupAtCollection.DescribesPatientAge

Gets the value of the specimenCollectionSummary property.

getSpecimenCollectionSummary() - Method in class org.molgenis.jaxb.Preservation.IsAppliedTo

Gets the value of the specimenCollectionSummary property.

getSpecimenCount() - Method in class org.molgenis.jaxb.SpecimenCollectionSummary

Gets the value of the specimenCount property.

getSpecimenType() - Method in class org.molgenis.jaxb.SpecimenCollectionSummary

Gets the value of the specimenType property.

getStartDate() - Method in class org.molgenis.jaxb.CollectionProtocol

Gets the value of the startDate property.

getState() - Method in class org.molgenis.jaxb.Address

Gets the value of the state property.

getStorageTemperatureInCentegrades() - Method in class org.molgenis.jaxb.Preservation

Gets the value of the storageTemperatureInCentegrades property.

getStreetOrThoroughfareExtensionName() - Method in class org.molgenis.jaxb.Address

Gets the value of the streetOrThoroughfareExtensionName property.

getStreetOrThoroughfareNameAndType() - Method in class org.molgenis.jaxb.Address

Gets the value of the streetOrThoroughfareNameAndType property.

getStreetOrThoroughfareNumber() - Method in class org.molgenis.jaxb.Address

Gets the value of the streetOrThoroughfareNumber property.

getStreetOrThoroughfareSectionName() - Method in class org.molgenis.jaxb.Address

Gets the value of the streetOrThoroughfareSectionName property.

getStreetPostDirectional() - Method in class org.molgenis.jaxb.Address

Gets the value of the streetPostDirectional property.

getStreetPreDirectional() - Method in class org.molgenis.jaxb.Address

Gets the value of the streetPreDirectional property.

getUndergoes() - Method in class org.molgenis.jaxb.SpecimenCollectionSummary

Gets the value of the undergoes property.

getViewName() - Method in class org.molgenis.cbm.CbmToOmxConverter

getViewName() - Method in class org.molgenis.omx.plugins.BackgroundPlugin

getViewName() - Method in class org.molgenis.omx.plugins.ContactPlugin

getViewName() - Method in class org.molgenis.omx.plugins.HeaderPlugin

getViewName() - Method in class org.molgenis.omx.plugins.HomePlugin

getViewName() - Method in class org.molgenis.omx.plugins.NewsPlugin

getViewName() - Method in class org.molgenis.omx.plugins.ReferencesPlugin

getViewTemplate() - Method in class org.molgenis.cbm.CbmToOmxConverter

getViewTemplate() - Method in class org.molgenis.omx.plugins.BackgroundPlugin

getViewTemplate() - Method in class org.molgenis.omx.plugins.ContactPlugin

getViewTemplate() - Method in class org.molgenis.omx.plugins.HeaderPlugin

getViewTemplate() - Method in class org.molgenis.omx.plugins.HomePlugin

getViewTemplate() - Method in class org.molgenis.omx.plugins.NewsPlugin

getViewTemplate() - Method in class org.molgenis.omx.plugins.ReferencesPlugin

getZipCode() - Method in class org.molgenis.jaxb.Address

Gets the value of the zipCode property.

GuiService - Class in org.molgenis.servlet

GuiService(MolgenisContext) - Constructor for class org.molgenis.servlet.GuiService

H

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.AccessionController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.BoolValueController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.CategoricalValueController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.CategoryController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.CharacteristicController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.DataSetController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.DateTimeValueController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.DateValueController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.DecimalValueController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.EmailValueController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.HtmlValueController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.HyperlinkValueController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.IndividualController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.InstituteController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.IntValueController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.LongValueController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.MolgenisFileController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.MrefValueController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.ObservableFeatureController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.ObservationSetController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.ObservationTargetController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.ObservedValueController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.OntologyController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.OntologyTermController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.PanelController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.PanelSourceController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.PersonController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.PersonRoleController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.ProtocolController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.RuntimePropertyController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.SpeciesController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.StringValueController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.StudyDataRequestController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.TextValueController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.ValueController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.XrefValueController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.AccessionController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.BoolValueController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.CategoricalValueController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.CategoryController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.CharacteristicController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.DataSetController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.DateTimeValueController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.DateValueController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.DecimalValueController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.EmailValueController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.HtmlValueController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.HyperlinkValueController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.IndividualController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.InstituteController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.IntValueController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.LongValueController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.MolgenisFileController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.MrefValueController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.ObservableFeatureController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.ObservationSetController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.ObservationTargetController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.ObservedValueController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.OntologyController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.OntologyTermController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.PanelController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.PanelSourceController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.PersonController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.PersonRoleController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.ProtocolController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.RuntimePropertyController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.SpeciesController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.StringValueController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.StudyDataRequestController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.TextValueController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.ValueController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.XrefValueController

handleRequest(Database, MolgenisRequest) - Method in class org.molgenis.cbm.CbmToOmxConverter

handleRequest(Database, MolgenisRequest) - Method in class org.molgenis.omx.plugins.BackgroundPlugin

handleRequest(Database, MolgenisRequest) - Method in class org.molgenis.omx.plugins.ContactPlugin

handleRequest(Database, MolgenisRequest) - Method in class org.molgenis.omx.plugins.HeaderPlugin

handleRequest(Database, MolgenisRequest) - Method in class org.molgenis.omx.plugins.HomePlugin

handleRequest(Database, MolgenisRequest) - Method in class org.molgenis.omx.plugins.NewsPlugin

handleRequest(Database, MolgenisRequest) - Method in class org.molgenis.omx.plugins.ReferencesPlugin

hasAdditionalPatientDemographics - Variable in class org.molgenis.jaxb.AnnotationAvailabilityProfile

hasExposureHistory - Variable in class org.molgenis.jaxb.AnnotationAvailabilityProfile

hasFamilyHistory - Variable in class org.molgenis.jaxb.AnnotationAvailabilityProfile

hasHistopathologicInformation - Variable in class org.molgenis.jaxb.AnnotationAvailabilityProfile

hasLabData - Variable in class org.molgenis.jaxb.AnnotationAvailabilityProfile

hasLongitudinalSpecimens - Variable in class org.molgenis.jaxb.AnnotationAvailabilityProfile

hasMatchedSpecimens - Variable in class org.molgenis.jaxb.AnnotationAvailabilityProfile

hasOutcomeInformation - Variable in class org.molgenis.jaxb.AnnotationAvailabilityProfile

hasParticipantsAvailableForFollowup - Variable in class org.molgenis.jaxb.AnnotationAvailabilityProfile

hasTreatmentInformation - Variable in class org.molgenis.jaxb.AnnotationAvailabilityProfile

HeaderPlugin - Class in org.molgenis.omx.plugins

HeaderPlugin(String, ScreenController<?>) - Constructor for class org.molgenis.omx.plugins.HeaderPlugin

HeaderPlugin.HeaderModel - Class in org.molgenis.omx.plugins

HeaderPlugin.HeaderModel() - Constructor for class org.molgenis.omx.plugins.HeaderPlugin.HeaderModel

HeaderPluginPlugin - Class in org.molgenis.ui

HeaderPluginPlugin(ScreenController<?>) - Constructor for class org.molgenis.ui.HeaderPluginPlugin

homepageURL - Variable in class org.molgenis.jaxb.Institution

HomePlugin - Class in org.molgenis.omx.plugins

HomePlugin(String, ScreenController<?>) - Constructor for class org.molgenis.omx.plugins.HomePlugin

HomePlugin.HomeModel - Class in org.molgenis.omx.plugins

HomePlugin.HomeModel() - Constructor for class org.molgenis.omx.plugins.HomePlugin.HomeModel

HomePluginPlugin - Class in org.molgenis.ui

HomePluginPlugin(ScreenController<?>) - Constructor for class org.molgenis.ui.HomePluginPlugin

HtmlValueController - Class in org.molgenis.controller

HtmlValueController() - Constructor for class org.molgenis.controller.HtmlValueController

HtmlValueSecurityDecorator<E extends HtmlValue> - Class in org.molgenis.omx.observ.value.db

TODO add column level security filters

HtmlValueSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.value.db.HtmlValueSecurityDecorator

HtmlValueService - Class in org.molgenis.service

HtmlValueService() - Constructor for class org.molgenis.service.HtmlValueService

HyperlinkValueController - Class in org.molgenis.controller

HyperlinkValueController() - Constructor for class org.molgenis.controller.HyperlinkValueController

HyperlinkValueSecurityDecorator<E extends HyperlinkValue> - Class in org.molgenis.omx.observ.value.db

TODO add column level security filters

HyperlinkValueSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.value.db.HyperlinkValueSecurityDecorator

HyperlinkValueService - Class in org.molgenis.service

HyperlinkValueService() - Constructor for class org.molgenis.service.HyperlinkValueService

I

id - Variable in class org.molgenis.jaxb.Address

id - Variable in class org.molgenis.jaxb.AnnotationAvailabilityProfile

id - Variable in class org.molgenis.jaxb.CollectionProtocol

id - Variable in class org.molgenis.jaxb.Diagnosis

id - Variable in class org.molgenis.jaxb.Organization

id - Variable in class org.molgenis.jaxb.ParticipantCollectionSummary

id - Variable in class org.molgenis.jaxb.PatientAgeGroupAtCollection

id - Variable in class org.molgenis.jaxb.Person

id - Variable in class org.molgenis.jaxb.Preservation

id - Variable in class org.molgenis.jaxb.Race

id - Variable in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

id - Variable in class org.molgenis.jaxb.SpecimenCollectionSummary

identifier - Variable in class org.molgenis.jaxb.CollectionProtocol

importEntities(File, Database.DatabaseAction) - Method in class org.molgenis.EntitiesImporterImpl

importEntities(List<File>, Database.DatabaseAction) - Method in class org.molgenis.EntitiesImporterImpl

importEntities(TupleReader, String, Database.DatabaseAction) - Method in class org.molgenis.EntitiesImporterImpl

importEntities(TableReader, Database.DatabaseAction) - Method in class org.molgenis.EntitiesImporterImpl

index() - Method in class org.molgenis.omx.WebAppConfig.RootController

IndividualController - Class in org.molgenis.controller

IndividualController() - Constructor for class org.molgenis.controller.IndividualController

IndividualSecurityDecorator<E extends Individual> - Class in org.molgenis.omx.observ.target.db

TODO add column level security filters

IndividualSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.target.db.IndividualSecurityDecorator

IndividualService - Class in org.molgenis.service

IndividualService() - Constructor for class org.molgenis.service.IndividualService

init(ServletConfig) - Method in class org.molgenis.servlet.FrontController

initializeApplicationDatabase(Database) - Method in class org.molgenis.MolgenisDatabasePopulator

initializeApplicationDatabase(Database) - Method in class org.molgenis.omx.WebAppDatabasePopulator

InstituteController - Class in org.molgenis.controller

InstituteController() - Constructor for class org.molgenis.controller.InstituteController

InstituteSecurityDecorator<E extends Institute> - Class in org.molgenis.omx.auth.db

TODO add column level security filters

InstituteSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.auth.db.InstituteSecurityDecorator

InstituteService - Class in org.molgenis.service

InstituteService() - Constructor for class org.molgenis.service.InstituteService

institution - Variable in class org.molgenis.jaxb.CollectionProtocol.ResidesAt

Institution - Class in org.molgenis.jaxb

Java class for Institution complex type.

Institution() - Constructor for class org.molgenis.jaxb.Institution

IntValueController - Class in org.molgenis.controller

IntValueController() - Constructor for class org.molgenis.controller.IntValueController

IntValueSecurityDecorator<E extends IntValue> - Class in org.molgenis.omx.observ.value.db

TODO add column level security filters

IntValueSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.value.db.IntValueSecurityDecorator

IntValueService - Class in org.molgenis.service

IntValueService() - Constructor for class org.molgenis.service.IntValueService

isAppliedTo - Variable in class org.molgenis.jaxb.Preservation

isAssignedTo - Variable in class org.molgenis.jaxb.CollectionProtocol

isAvailableToCommercialOrganizations - Variable in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

isAvailableToForeignInvestigators - Variable in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

isAvailableToOutsideInstitution - Variable in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

isClassifiedBy - Variable in class org.molgenis.jaxb.ParticipantCollectionSummary

isCollaborationRequired - Variable in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

isConstrainedBy - Variable in class org.molgenis.jaxb.CollectionProtocol

isHasAdditionalPatientDemographics() - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Gets the value of the hasAdditionalPatientDemographics property.

isHasExposureHistory() - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Gets the value of the hasExposureHistory property.

isHasFamilyHistory() - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Gets the value of the hasFamilyHistory property.

isHasHistopathologicInformation() - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Gets the value of the hasHistopathologicInformation property.

isHasLabData() - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Gets the value of the hasLabData property.

isHasLongitudinalSpecimens() - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Gets the value of the hasLongitudinalSpecimens property.

isHasMatchedSpecimens() - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Gets the value of the hasMatchedSpecimens property.

isHasOutcomeInformation() - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Gets the value of the hasOutcomeInformation property.

isHasParticipantsAvailableForFollowup() - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Gets the value of the hasParticipantsAvailableForFollowup property.

isHasTreatmentInformation() - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Gets the value of the hasTreatmentInformation property.

isIsAvailableToCommercialOrganizations() - Method in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

Gets the value of the isAvailableToCommercialOrganizations property.

isIsAvailableToForeignInvestigators() - Method in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

Gets the value of the isAvailableToForeignInvestigators property.

isIsAvailableToOutsideInstitution() - Method in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

Gets the value of the isAvailableToOutsideInstitution property.

isIsCollaborationRequired() - Method in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

Gets the value of the isCollaborationRequired property.

isLocatedAt - Variable in class org.molgenis.jaxb.SpecimenCollectionContact

isVisible() - Method in class org.molgenis.omx.plugins.HeaderPlugin

isVisible() - Method in class org.molgenis.omx.plugins.HomePlugin

J

JDBCMetaDatabase - Class in org.molgenis

This class is an in memory representation of the contents of your *_db.xml file Utility of this class is to allow for dynamic querying and/or user interfacing for example within a query tool or a security module.

JDBCMetaDatabase() - Constructor for class org.molgenis.JDBCMetaDatabase

JpaDatabase - Class in org.molgenis

JpaDatabase(EntityManagerFactory) - Constructor for class org.molgenis.JpaDatabase

K

KEY_APP_NAME - Static variable in class org.molgenis.servlet.GuiService

L

lastName - Variable in class org.molgenis.jaxb.Person

load(File, File) - Method in class org.molgenis.cbm.CbmXmlParser

logger - Variable in class org.molgenis.gids.tools.compare.ValidationChecker

login() - Method in class org.molgenis.DatabaseConfig

LongValueController - Class in org.molgenis.controller

LongValueController() - Constructor for class org.molgenis.controller.LongValueController

LongValueSecurityDecorator<E extends LongValue> - Class in org.molgenis.omx.observ.value.db

TODO add column level security filters

LongValueSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.value.db.LongValueSecurityDecorator

LongValueService - Class in org.molgenis.service

LongValueService() - Constructor for class org.molgenis.service.LongValueService

M

mailSender() - Method in class org.molgenis.omx.WebAppConfig

main(String[]) - Static method in class org.molgenis.bbmri.BbmriToOmxConverter

main(String[]) - Static method in class org.molgenis.gids.tools.compare.Validation_Main

main(String[]) - Static method in class org.molgenis.gids.tools.convertor.ConvertGidsMain

main(String[]) - Static method in class org.molgenis.sampletab.SampleTabOmxConverter

MainMenu - Class in org.molgenis.ui

MainMenu(ScreenController<?>) - Constructor for class org.molgenis.ui.MainMenu

MakeEntityNameAndIdentifier - Class in org.molgenis.gids.tools.convertor

MakeEntityNameAndIdentifier(String, String) - Constructor for class org.molgenis.gids.tools.convertor.MakeEntityNameAndIdentifier

MakeEntityNameAndIdentifier(String, String, String) - Constructor for class org.molgenis.gids.tools.convertor.MakeEntityNameAndIdentifier

MakeObservableFeature - Class in org.molgenis.gids.tools.convertor

MakeObservableFeature(String, String, String, String) - Constructor for class org.molgenis.gids.tools.convertor.MakeObservableFeature

MakeObservationTarget - Class in org.molgenis.gids.tools.convertor

MakeObservationTarget(String, String) - Constructor for class org.molgenis.gids.tools.convertor.MakeObservationTarget

makesAvailable - Variable in class org.molgenis.jaxb.CollectionProtocol

ManagementMenu - Class in org.molgenis.ui

ManagementMenu(ScreenController<?>) - Constructor for class org.molgenis.ui.ManagementMenu

middleNameOrInitial - Variable in class org.molgenis.jaxb.Person

mkmetadataExcelFile(ArrayList<String>) - Method in class org.molgenis.gids.tools.convertor.SampleConverter

mkMetadataFileDataSet(ExcelWriter, String) - Method in class org.molgenis.gids.tools.convertor.SampleConverter

mkMetadataFileObservableFeature(ExcelWriter, String) - Method in class org.molgenis.gids.tools.convertor.SampleConverter

mkMetadataFileProtocol(ExcelWriter, String) - Method in class org.molgenis.gids.tools.convertor.SampleConverter

MolgenisContextListener - Class in org.molgenis.servlet

MolgenisContextListener() - Constructor for class org.molgenis.servlet.MolgenisContextListener

MolgenisDatabasePopulator - Class in org.molgenis

MolgenisDatabasePopulator() - Constructor for class org.molgenis.MolgenisDatabasePopulator

MolgenisEntityFormController - Class in org.molgenis.ui

MolgenisEntityFormController() - Constructor for class org.molgenis.ui.MolgenisEntityFormController

MolgenisEntityFormController(ScreenController<?>) - Constructor for class org.molgenis.ui.MolgenisEntityFormController

MolgenisEntitySecurityDecorator<E extends MolgenisEntity> - Class in org.molgenis.omx.core.db

TODO add column level security filters

MolgenisEntitySecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.core.db.MolgenisEntitySecurityDecorator

MolgenisFileController - Class in org.molgenis.controller

MolgenisFileController() - Constructor for class org.molgenis.controller.MolgenisFileController

MolgenisFileSecurityDecorator<E extends MolgenisFile> - Class in org.molgenis.omx.core.db

TODO add column level security filters

MolgenisFileSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.core.db.MolgenisFileSecurityDecorator

MolgenisFileService - Class in org.molgenis.service

MolgenisFileService() - Constructor for class org.molgenis.service.MolgenisFileService

MolgenisGroupFormController - Class in org.molgenis.ui

MolgenisGroupFormController() - Constructor for class org.molgenis.ui.MolgenisGroupFormController

MolgenisGroupFormController(ScreenController<?>) - Constructor for class org.molgenis.ui.MolgenisGroupFormController

MolgenisGroupSecurityDecorator<E extends MolgenisGroup> - Class in org.molgenis.omx.auth.db

TODO add column level security filters

MolgenisGroupSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.auth.db.MolgenisGroupSecurityDecorator

MolgenisPermissionFormController - Class in org.molgenis.ui

MolgenisPermissionFormController() - Constructor for class org.molgenis.ui.MolgenisPermissionFormController

MolgenisPermissionFormController(ScreenController<?>) - Constructor for class org.molgenis.ui.MolgenisPermissionFormController

MolgenisPermissionSecurityDecorator<E extends MolgenisPermission> - Class in org.molgenis.omx.auth.db

TODO add column level security filters

MolgenisPermissionSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.auth.db.MolgenisPermissionSecurityDecorator

MolgenisRoleGroupLinkFormController - Class in org.molgenis.ui

MolgenisRoleGroupLinkFormController() - Constructor for class org.molgenis.ui.MolgenisRoleGroupLinkFormController

MolgenisRoleGroupLinkFormController(ScreenController<?>) - Constructor for class org.molgenis.ui.MolgenisRoleGroupLinkFormController

MolgenisRoleGroupLinkSecurityDecorator<E extends MolgenisRoleGroupLink> - Class in org.molgenis.omx.auth.db

TODO add column level security filters

MolgenisRoleGroupLinkSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.auth.db.MolgenisRoleGroupLinkSecurityDecorator

MolgenisRoleSecurityDecorator<E extends MolgenisRole> - Class in org.molgenis.omx.auth.db

TODO add column level security filters

MolgenisRoleSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.auth.db.MolgenisRoleSecurityDecorator

MolgenisUserFormController - Class in org.molgenis.ui

MolgenisUserFormController() - Constructor for class org.molgenis.ui.MolgenisUserFormController

MolgenisUserFormController(ScreenController<?>) - Constructor for class org.molgenis.ui.MolgenisUserFormController

MolgenisUserSecurityDecorator<E extends MolgenisUser> - Class in org.molgenis.omx.auth.db

TODO add column level security filters

MolgenisUserSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.auth.db.MolgenisUserSecurityDecorator

MrefValueController - Class in org.molgenis.controller

MrefValueController() - Constructor for class org.molgenis.controller.MrefValueController

MrefValueSecurityDecorator<E extends MrefValue> - Class in org.molgenis.omx.observ.value.db

TODO add column level security filters

MrefValueSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.value.db.MrefValueSecurityDecorator

MrefValueService - Class in org.molgenis.service

MrefValueService() - Constructor for class org.molgenis.service.MrefValueService

multipartResolver() - Method in class org.molgenis.omx.WebAppConfig

N

name - Variable in class org.molgenis.jaxb.CollectionProtocol

name - Variable in class org.molgenis.jaxb.Organization

NewsPlugin - Class in org.molgenis.omx.plugins

NewsPlugin(String, ScreenController<?>) - Constructor for class org.molgenis.omx.plugins.NewsPlugin

NewsPlugin.NewsModel - Class in org.molgenis.omx.plugins

NewsPlugin.NewsModel() - Constructor for class org.molgenis.omx.plugins.NewsPlugin.NewsModel

NewsPluginPlugin - Class in org.molgenis.ui

NewsPluginPlugin(ScreenController<?>) - Constructor for class org.molgenis.ui.NewsPluginPlugin

O

ObjectFactory - Class in org.molgenis.jaxb

This object contains factory methods for each Java content interface and Java element interface generated in the org.molgenis.jaxb package.

ObjectFactory() - Constructor for class org.molgenis.jaxb.ObjectFactory

Create a new ObjectFactory that can be used to create new instances of schema derived classes for package: org.molgenis.jaxb

ObservableFeatureController - Class in org.molgenis.controller

ObservableFeatureController() - Constructor for class org.molgenis.controller.ObservableFeatureController

ObservableFeatureSecurityDecorator<E extends ObservableFeature> - Class in org.molgenis.omx.observ.db

TODO add column level security filters

ObservableFeatureSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.db.ObservableFeatureSecurityDecorator

ObservableFeatureService - Class in org.molgenis.service

ObservableFeatureService() - Constructor for class org.molgenis.service.ObservableFeatureService

ObservationSetController - Class in org.molgenis.controller

ObservationSetController() - Constructor for class org.molgenis.controller.ObservationSetController

ObservationSetSecurityDecorator<E extends ObservationSet> - Class in org.molgenis.omx.observ.db

TODO add column level security filters

ObservationSetSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.db.ObservationSetSecurityDecorator

ObservationSetService - Class in org.molgenis.service

ObservationSetService() - Constructor for class org.molgenis.service.ObservationSetService

ObservationTargetController - Class in org.molgenis.controller

ObservationTargetController() - Constructor for class org.molgenis.controller.ObservationTargetController

ObservationTargetSecurityDecorator<E extends ObservationTarget> - Class in org.molgenis.omx.observ.db

TODO add column level security filters

ObservationTargetSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.db.ObservationTargetSecurityDecorator

ObservationTargetService - Class in org.molgenis.service

ObservationTargetService() - Constructor for class org.molgenis.service.ObservationTargetService

ObservedValueController - Class in org.molgenis.controller

ObservedValueController() - Constructor for class org.molgenis.controller.ObservedValueController

ObservedValueSecurityDecorator<E extends ObservedValue> - Class in org.molgenis.omx.observ.db

TODO add column level security filters

ObservedValueSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.db.ObservedValueSecurityDecorator

ObservedValueService - Class in org.molgenis.service

ObservedValueService() - Constructor for class org.molgenis.service.ObservedValueService

onApplicationEvent(ContextRefreshedEvent) - Method in class org.molgenis.MolgenisDatabasePopulator

onStartup(ServletContext) - Method in class org.molgenis.omx.WebAppInitializer

OntologyController - Class in org.molgenis.controller

OntologyController() - Constructor for class org.molgenis.controller.OntologyController

OntologySecurityDecorator<E extends Ontology> - Class in org.molgenis.omx.observ.target.db

TODO add column level security filters

OntologySecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.target.db.OntologySecurityDecorator

OntologyService - Class in org.molgenis.service

OntologyService() - Constructor for class org.molgenis.service.OntologyService

OntologyTermController - Class in org.molgenis.controller

OntologyTermController() - Constructor for class org.molgenis.controller.OntologyTermController

OntologyTermSecurityDecorator<E extends OntologyTerm> - Class in org.molgenis.omx.observ.target.db

TODO add column level security filters

OntologyTermSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.target.db.OntologyTermSecurityDecorator

OntologyTermService - Class in org.molgenis.service

OntologyTermService() - Constructor for class org.molgenis.service.OntologyTermService

org.molgenis - package org.molgenis

org.molgenis.bbmri - package org.molgenis.bbmri

org.molgenis.cbm - package org.molgenis.cbm

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

org.molgenis.gids.tools.compare - package org.molgenis.gids.tools.compare

org.molgenis.gids.tools.convertor - package org.molgenis.gids.tools.convertor

org.molgenis.jaxb - package org.molgenis.jaxb

org.molgenis.omx - package org.molgenis.omx

org.molgenis.omx.auth.db - package org.molgenis.omx.auth.db

org.molgenis.omx.core.db - package org.molgenis.omx.core.db

org.molgenis.omx.filter.db - package org.molgenis.omx.filter.db

org.molgenis.omx.observ.db - package org.molgenis.omx.observ.db

org.molgenis.omx.observ.target.db - package org.molgenis.omx.observ.target.db

org.molgenis.omx.observ.value.db - package org.molgenis.omx.observ.value.db

org.molgenis.omx.plugins - package org.molgenis.omx.plugins

org.molgenis.sampletab - package org.molgenis.sampletab

org.molgenis.service - package org.molgenis.service

org.molgenis.servlet - package org.molgenis.servlet

org.molgenis.ui - package org.molgenis.ui

Organization - Class in org.molgenis.jaxb

Java class for Organization complex type.

Organization() - Constructor for class org.molgenis.jaxb.Organization

P

PanelController - Class in org.molgenis.controller

PanelController() - Constructor for class org.molgenis.controller.PanelController

PanelSecurityDecorator<E extends Panel> - Class in org.molgenis.omx.observ.target.db

TODO add column level security filters

PanelSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.target.db.PanelSecurityDecorator

PanelService - Class in org.molgenis.service

PanelService() - Constructor for class org.molgenis.service.PanelService

PanelSourceController - Class in org.molgenis.controller

PanelSourceController() - Constructor for class org.molgenis.controller.PanelSourceController

PanelSourceSecurityDecorator<E extends PanelSource> - Class in org.molgenis.omx.observ.target.db

TODO add column level security filters

PanelSourceSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.target.db.PanelSourceSecurityDecorator

PanelSourceService - Class in org.molgenis.service

PanelSourceService() - Constructor for class org.molgenis.service.PanelSourceService

participantCollectionSummary - Variable in class org.molgenis.jaxb.CollectionProtocol.Enrolls

ParticipantCollectionSummary - Class in org.molgenis.jaxb

Java class for ParticipantCollectionSummary complex type.

ParticipantCollectionSummary() - Constructor for class org.molgenis.jaxb.ParticipantCollectionSummary

ParticipantCollectionSummary.IsClassifiedBy - Class in org.molgenis.jaxb

Java class for anonymous complex type.

ParticipantCollectionSummary.IsClassifiedBy() - Constructor for class org.molgenis.jaxb.ParticipantCollectionSummary.IsClassifiedBy

ParticipantCollectionSummary.Provides - Class in org.molgenis.jaxb

Java class for anonymous complex type.

ParticipantCollectionSummary.Provides() - Constructor for class org.molgenis.jaxb.ParticipantCollectionSummary.Provides

ParticipantCollectionSummary.Receives - Class in org.molgenis.jaxb

Java class for anonymous complex type.

ParticipantCollectionSummary.Receives() - Constructor for class org.molgenis.jaxb.ParticipantCollectionSummary.Receives

participantCount - Variable in class org.molgenis.jaxb.ParticipantCollectionSummary

PatientAgeGroupAtCollection - Class in org.molgenis.jaxb

Java class for PatientAgeGroupAtCollection complex type.

PatientAgeGroupAtCollection() - Constructor for class org.molgenis.jaxb.PatientAgeGroupAtCollection

PatientAgeGroupAtCollection.DescribesPatientAge - Class in org.molgenis.jaxb

Java class for anonymous complex type.

PatientAgeGroupAtCollection.DescribesPatientAge() - Constructor for class org.molgenis.jaxb.PatientAgeGroupAtCollection.DescribesPatientAge

patientAgeGroupHigh - Variable in class org.molgenis.jaxb.PatientAgeGroupAtCollection

patientAgeGroupLow - Variable in class org.molgenis.jaxb.PatientAgeGroupAtCollection

pattenMatchExtractFeature(String) - Method in class org.molgenis.sampletab.SampleTabOmxConverter

PermissionManagementPluginPlugin - Class in org.molgenis.ui

PermissionManagementPluginPlugin(ScreenController<?>) - Constructor for class org.molgenis.ui.PermissionManagementPluginPlugin

Person - Class in org.molgenis.jaxb

Java class for Person complex type.

Person() - Constructor for class org.molgenis.jaxb.Person

PersonController - Class in org.molgenis.controller

PersonController() - Constructor for class org.molgenis.controller.PersonController

PersonRoleController - Class in org.molgenis.controller

PersonRoleController() - Constructor for class org.molgenis.controller.PersonRoleController

PersonRoleSecurityDecorator<E extends PersonRole> - Class in org.molgenis.omx.auth.db

TODO add column level security filters

PersonRoleSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.auth.db.PersonRoleSecurityDecorator

PersonRoleService - Class in org.molgenis.service

PersonRoleService() - Constructor for class org.molgenis.service.PersonRoleService

PersonSecurityDecorator<E extends Person> - Class in org.molgenis.omx.auth.db

TODO add column level security filters

PersonSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.auth.db.PersonSecurityDecorator

PersonService - Class in org.molgenis.service

PersonService() - Constructor for class org.molgenis.service.PersonService

phone - Variable in class org.molgenis.jaxb.SpecimenCollectionContact

postOfficeBox - Variable in class org.molgenis.jaxb.Address

Preservation - Class in org.molgenis.jaxb

Java class for Preservation complex type.

Preservation() - Constructor for class org.molgenis.jaxb.Preservation

Preservation.IsAppliedTo - Class in org.molgenis.jaxb

Java class for anonymous complex type.

Preservation.IsAppliedTo() - Constructor for class org.molgenis.jaxb.Preservation.IsAppliedTo

preservationType - Variable in class org.molgenis.jaxb.Preservation

properties() - Static method in class org.molgenis.omx.WebAppConfig

ProtocolController - Class in org.molgenis.controller

ProtocolController() - Constructor for class org.molgenis.controller.ProtocolController

ProtocolFormController - Class in org.molgenis.ui

ProtocolFormController() - Constructor for class org.molgenis.ui.ProtocolFormController

ProtocolFormController(ScreenController<?>) - Constructor for class org.molgenis.ui.ProtocolFormController

ProtocolManagerPluginPlugin - Class in org.molgenis.ui

ProtocolManagerPluginPlugin(ScreenController<?>) - Constructor for class org.molgenis.ui.ProtocolManagerPluginPlugin

protocols - Variable in class org.molgenis.jaxb.CbmNode

ProtocolSecurityDecorator<E extends Protocol> - Class in org.molgenis.omx.observ.db

TODO add column level security filters

ProtocolSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.db.ProtocolSecurityDecorator

ProtocolService - Class in org.molgenis.service

ProtocolService() - Constructor for class org.molgenis.service.ProtocolService

ProtocolViewerControllerPlugin - Class in org.molgenis.ui

ProtocolViewerControllerPlugin(ScreenController<?>) - Constructor for class org.molgenis.ui.ProtocolViewerControllerPlugin

provides - Variable in class org.molgenis.jaxb.ParticipantCollectionSummary

providesInformationTo - Variable in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Q

qualifiesPatientAgeAtSpecimenCollection - Variable in class org.molgenis.jaxb.SpecimenCollectionSummary

R

race - Variable in class org.molgenis.jaxb.ParticipantCollectionSummary.IsClassifiedBy

Race - Class in org.molgenis.jaxb

Java class for Race complex type.

Race() - Constructor for class org.molgenis.jaxb.Race

race - Variable in class org.molgenis.jaxb.Race

read(Integer) - Method in class org.molgenis.service.AccessionService

read(Integer) - Method in class org.molgenis.service.BoolValueService

read(Integer) - Method in class org.molgenis.service.CategoricalValueService

read(Integer) - Method in class org.molgenis.service.CategoryService

read(Integer) - Method in class org.molgenis.service.CharacteristicService

read(Integer) - Method in class org.molgenis.service.DataSetService

read(Integer) - Method in class org.molgenis.service.DateTimeValueService

read(Integer) - Method in class org.molgenis.service.DateValueService

read(Integer) - Method in class org.molgenis.service.DecimalValueService

read(Integer) - Method in class org.molgenis.service.EmailValueService

read(Integer) - Method in class org.molgenis.service.HtmlValueService

read(Integer) - Method in class org.molgenis.service.HyperlinkValueService

read(Integer) - Method in class org.molgenis.service.IndividualService

read(Integer) - Method in class org.molgenis.service.InstituteService

read(Integer) - Method in class org.molgenis.service.IntValueService

read(Integer) - Method in class org.molgenis.service.LongValueService

read(Integer) - Method in class org.molgenis.service.MolgenisFileService

read(Integer) - Method in class org.molgenis.service.MrefValueService

read(Integer) - Method in class org.molgenis.service.ObservableFeatureService

read(Integer) - Method in class org.molgenis.service.ObservationSetService

read(Integer) - Method in class org.molgenis.service.ObservationTargetService

read(Integer) - Method in class org.molgenis.service.ObservedValueService

read(Integer) - Method in class org.molgenis.service.OntologyService

read(Integer) - Method in class org.molgenis.service.OntologyTermService

read(Integer) - Method in class org.molgenis.service.PanelService

read(Integer) - Method in class org.molgenis.service.PanelSourceService

read(Integer) - Method in class org.molgenis.service.PersonRoleService

read(Integer) - Method in class org.molgenis.service.PersonService

read(Integer) - Method in class org.molgenis.service.ProtocolService

read(Integer) - Method in class org.molgenis.service.RuntimePropertyService

read(Integer) - Method in class org.molgenis.service.SpeciesService

read(Integer) - Method in class org.molgenis.service.StringValueService

read(Integer) - Method in class org.molgenis.service.StudyDataRequestService

read(Integer) - Method in class org.molgenis.service.TextValueService

read(Integer) - Method in class org.molgenis.service.ValueService

read(Integer) - Method in class org.molgenis.service.XrefValueService

readAll() - Method in class org.molgenis.service.AccessionService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.AccessionService

readAll() - Method in class org.molgenis.service.BoolValueService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.BoolValueService

readAll() - Method in class org.molgenis.service.CategoricalValueService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.CategoricalValueService

readAll() - Method in class org.molgenis.service.CategoryService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.CategoryService

readAll() - Method in class org.molgenis.service.CharacteristicService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.CharacteristicService

readAll() - Method in class org.molgenis.service.DataSetService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.DataSetService

readAll() - Method in class org.molgenis.service.DateTimeValueService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.DateTimeValueService

readAll() - Method in class org.molgenis.service.DateValueService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.DateValueService

readAll() - Method in class org.molgenis.service.DecimalValueService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.DecimalValueService

readAll() - Method in class org.molgenis.service.EmailValueService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.EmailValueService

readAll() - Method in class org.molgenis.service.HtmlValueService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.HtmlValueService

readAll() - Method in class org.molgenis.service.HyperlinkValueService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.HyperlinkValueService

readAll() - Method in class org.molgenis.service.IndividualService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.IndividualService

readAll() - Method in class org.molgenis.service.InstituteService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.InstituteService

readAll() - Method in class org.molgenis.service.IntValueService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.IntValueService

readAll() - Method in class org.molgenis.service.LongValueService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.LongValueService

readAll() - Method in class org.molgenis.service.MolgenisFileService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.MolgenisFileService

readAll() - Method in class org.molgenis.service.MrefValueService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.MrefValueService

readAll() - Method in class org.molgenis.service.ObservableFeatureService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.ObservableFeatureService

readAll() - Method in class org.molgenis.service.ObservationSetService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.ObservationSetService

readAll() - Method in class org.molgenis.service.ObservationTargetService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.ObservationTargetService

readAll() - Method in class org.molgenis.service.ObservedValueService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.ObservedValueService

readAll() - Method in class org.molgenis.service.OntologyService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.OntologyService

readAll() - Method in class org.molgenis.service.OntologyTermService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.OntologyTermService

readAll() - Method in class org.molgenis.service.PanelService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.PanelService

readAll() - Method in class org.molgenis.service.PanelSourceService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.PanelSourceService

readAll() - Method in class org.molgenis.service.PersonRoleService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.PersonRoleService

readAll() - Method in class org.molgenis.service.PersonService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.PersonService

readAll() - Method in class org.molgenis.service.ProtocolService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.ProtocolService

readAll() - Method in class org.molgenis.service.RuntimePropertyService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.RuntimePropertyService

readAll() - Method in class org.molgenis.service.SpeciesService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.SpeciesService

readAll() - Method in class org.molgenis.service.StringValueService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.StringValueService

readAll() - Method in class org.molgenis.service.StudyDataRequestService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.StudyDataRequestService

readAll() - Method in class org.molgenis.service.TextValueService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.TextValueService

readAll() - Method in class org.molgenis.service.ValueService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.ValueService

readAll() - Method in class org.molgenis.service.XrefValueService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.XrefValueService

receives - Variable in class org.molgenis.jaxb.ParticipantCollectionSummary

ReferencesPlugin - Class in org.molgenis.omx.plugins

ReferencesPlugin(String, ScreenController<?>) - Constructor for class org.molgenis.omx.plugins.ReferencesPlugin

ReferencesPlugin.ReferencesModel - Class in org.molgenis.omx.plugins

ReferencesPlugin.ReferencesModel() - Constructor for class org.molgenis.omx.plugins.ReferencesPlugin.ReferencesModel

ReferencesPluginPlugin - Class in org.molgenis.ui

ReferencesPluginPlugin(ScreenController<?>) - Constructor for class org.molgenis.ui.ReferencesPluginPlugin

reload(Database) - Method in class org.molgenis.cbm.CbmToOmxConverter

reload(Database) - Method in class org.molgenis.omx.plugins.BackgroundPlugin

reload(Database) - Method in class org.molgenis.omx.plugins.ContactPlugin

reload(Database) - Method in class org.molgenis.omx.plugins.HeaderPlugin

reload(Database) - Method in class org.molgenis.omx.plugins.HomePlugin

reload(Database) - Method in class org.molgenis.omx.plugins.NewsPlugin

reload(Database) - Method in class org.molgenis.omx.plugins.ReferencesPlugin

remove(List<E>) - Method in class org.molgenis.omx.auth.db.InstituteSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.auth.db.InstituteSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisGroupSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.auth.db.MolgenisGroupSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisPermissionSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.auth.db.MolgenisPermissionSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisRoleGroupLinkSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.auth.db.MolgenisRoleGroupLinkSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisRoleSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.auth.db.MolgenisRoleSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisUserSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.auth.db.MolgenisUserSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.auth.db.PersonRoleSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.auth.db.PersonRoleSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.auth.db.PersonSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.auth.db.PersonSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.core.db.MolgenisEntitySecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.core.db.MolgenisEntitySecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.core.db.MolgenisFileSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.core.db.MolgenisFileSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.core.db.RuntimePropertySecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.core.db.RuntimePropertySecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.filter.db.StudyDataRequestSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.filter.db.StudyDataRequestSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.db.CategorySecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.db.CategorySecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.db.CharacteristicSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.db.CharacteristicSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.db.DataSetSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.db.DataSetSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.db.ObservableFeatureSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.db.ObservableFeatureSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.db.ObservationSetSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.db.ObservationSetSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.db.ObservationTargetSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.db.ObservationTargetSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.db.ObservedValueSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.db.ObservedValueSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.db.ProtocolSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.db.ProtocolSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.target.db.AccessionSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.target.db.AccessionSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.target.db.IndividualSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.target.db.IndividualSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.target.db.OntologySecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.target.db.OntologySecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.target.db.OntologyTermSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.target.db.OntologyTermSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.target.db.PanelSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.target.db.PanelSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.target.db.PanelSourceSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.target.db.PanelSourceSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.target.db.SpeciesSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.target.db.SpeciesSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.value.db.BoolValueSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.value.db.BoolValueSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.value.db.CategoricalValueSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.value.db.CategoricalValueSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.value.db.DateTimeValueSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.value.db.DateTimeValueSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.value.db.DateValueSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.value.db.DateValueSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.value.db.DecimalValueSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.value.db.DecimalValueSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.value.db.EmailValueSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.value.db.EmailValueSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.value.db.HtmlValueSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.value.db.HtmlValueSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.value.db.HyperlinkValueSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.value.db.HyperlinkValueSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.value.db.IntValueSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.value.db.IntValueSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.value.db.LongValueSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.value.db.LongValueSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.value.db.MrefValueSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.value.db.MrefValueSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.value.db.StringValueSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.value.db.StringValueSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.value.db.TextValueSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.value.db.TextValueSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.value.db.ValueSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.value.db.ValueSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.observ.value.db.XrefValueSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.observ.value.db.XrefValueSecurityDecorator

resetCompactView() - Method in class org.molgenis.ui.CategoryFormController

resetCompactView() - Method in class org.molgenis.ui.DataSetFormController

resetCompactView() - Method in class org.molgenis.ui.FeatureFormController

resetCompactView() - Method in class org.molgenis.ui.MolgenisEntityFormController

resetCompactView() - Method in class org.molgenis.ui.MolgenisGroupFormController

resetCompactView() - Method in class org.molgenis.ui.MolgenisPermissionFormController

resetCompactView() - Method in class org.molgenis.ui.MolgenisRoleGroupLinkFormController

resetCompactView() - Method in class org.molgenis.ui.MolgenisUserFormController

resetCompactView() - Method in class org.molgenis.ui.ProtocolFormController

resetCompactView() - Method in class org.molgenis.ui.RuntimePropertyFormController

resetCompactView() - Method in class org.molgenis.ui.StudyDataRequestFormController

resetCompactView() - Method in class org.molgenis.ui.ValueFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.CategoryFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.DataSetFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.FeatureFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.MolgenisEntityFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.MolgenisGroupFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.MolgenisPermissionFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.MolgenisRoleGroupLinkFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.MolgenisUserFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.ProtocolFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.RuntimePropertyFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.StudyDataRequestFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.ValueFormController

residesAt - Variable in class org.molgenis.jaxb.CollectionProtocol

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.auth.db.InstituteSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisGroupSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisPermissionSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisRoleGroupLinkSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisRoleSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisUserSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.auth.db.PersonRoleSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.auth.db.PersonSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.core.db.MolgenisEntitySecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.core.db.MolgenisFileSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.core.db.RuntimePropertySecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.filter.db.StudyDataRequestSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.db.CategorySecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.db.CharacteristicSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.db.DataSetSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.db.ObservableFeatureSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.db.ObservationSetSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.db.ObservationTargetSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.db.ObservedValueSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.db.ProtocolSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.target.db.AccessionSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.target.db.IndividualSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.target.db.OntologySecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.target.db.OntologyTermSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.target.db.PanelSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.target.db.PanelSourceSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.target.db.SpeciesSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.value.db.BoolValueSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.value.db.CategoricalValueSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.value.db.DateTimeValueSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.value.db.DateValueSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.value.db.DecimalValueSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.value.db.EmailValueSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.value.db.HtmlValueSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.value.db.HyperlinkValueSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.value.db.IntValueSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.value.db.LongValueSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.value.db.MrefValueSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.value.db.StringValueSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.value.db.TextValueSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.value.db.ValueSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.observ.value.db.XrefValueSecurityDecorator

restrictsAccessTo - Variable in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

retrieveAccession(Integer, String...) - Method in class org.molgenis.controller.AccessionController

retrieveAccessionCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.AccessionController

retrieveAccessionCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.AccessionController

retrieveAccessionCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.AccessionController

retrieveAccessionCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.AccessionController

retrieveAccessionJson(Integer, String...) - Method in class org.molgenis.controller.AccessionController

retrieveAccessionXrefOntology(Integer, String...) - Method in class org.molgenis.controller.AccessionController

retrieveAccessionXrefOntologyJson(Integer, String...) - Method in class org.molgenis.controller.AccessionController

retrieveBoolValue(Integer, String...) - Method in class org.molgenis.controller.BoolValueController

retrieveBoolValueCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.BoolValueController

retrieveBoolValueCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.BoolValueController

retrieveBoolValueCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.BoolValueController

retrieveBoolValueCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.BoolValueController

retrieveBoolValueJson(Integer, String...) - Method in class org.molgenis.controller.BoolValueController

retrieveCategoricalValue(Integer, String...) - Method in class org.molgenis.controller.CategoricalValueController

retrieveCategoricalValueCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.CategoricalValueController

retrieveCategoricalValueCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.CategoricalValueController

retrieveCategoricalValueCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.CategoricalValueController

retrieveCategoricalValueCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.CategoricalValueController

retrieveCategoricalValueJson(Integer, String...) - Method in class org.molgenis.controller.CategoricalValueController

retrieveCategoricalValueXrefValue(Integer, String...) - Method in class org.molgenis.controller.CategoricalValueController

retrieveCategoricalValueXrefValueJson(Integer, String...) - Method in class org.molgenis.controller.CategoricalValueController

retrieveCategory(Integer, String...) - Method in class org.molgenis.controller.CategoryController

retrieveCategoryCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.CategoryController

retrieveCategoryCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.CategoryController

retrieveCategoryCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.CategoryController

retrieveCategoryCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.CategoryController

retrieveCategoryJson(Integer, String...) - Method in class org.molgenis.controller.CategoryController

retrieveCategoryXrefDefinition(Integer, String...) - Method in class org.molgenis.controller.CategoryController

retrieveCategoryXrefDefinitionJson(Integer, String...) - Method in class org.molgenis.controller.CategoryController

retrieveCategoryXrefObservableFeature(Integer, String...) - Method in class org.molgenis.controller.CategoryController

retrieveCategoryXrefObservableFeatureJson(Integer, String...) - Method in class org.molgenis.controller.CategoryController

retrieveCharacteristic(Integer, String...) - Method in class org.molgenis.controller.CharacteristicController

retrieveCharacteristicCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.CharacteristicController

retrieveCharacteristicCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.CharacteristicController

retrieveCharacteristicCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.CharacteristicController

retrieveCharacteristicCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.CharacteristicController

retrieveCharacteristicJson(Integer, String...) - Method in class org.molgenis.controller.CharacteristicController

retrieveDataSet(Integer, String...) - Method in class org.molgenis.controller.DataSetController

retrieveDataSetCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.DataSetController

retrieveDataSetCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.DataSetController

retrieveDataSetCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.DataSetController

retrieveDataSetCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.DataSetController

retrieveDataSetJson(Integer, String...) - Method in class org.molgenis.controller.DataSetController

retrieveDataSetXrefProtocolUsed(Integer, String...) - Method in class org.molgenis.controller.DataSetController

retrieveDataSetXrefProtocolUsedJson(Integer, String...) - Method in class org.molgenis.controller.DataSetController

retrieveDateTimeValue(Integer, String...) - Method in class org.molgenis.controller.DateTimeValueController

retrieveDateTimeValueCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.DateTimeValueController

retrieveDateTimeValueCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.DateTimeValueController

retrieveDateTimeValueCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.DateTimeValueController

retrieveDateTimeValueCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.DateTimeValueController

retrieveDateTimeValueJson(Integer, String...) - Method in class org.molgenis.controller.DateTimeValueController

retrieveDateValue(Integer, String...) - Method in class org.molgenis.controller.DateValueController

retrieveDateValueCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.DateValueController

retrieveDateValueCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.DateValueController

retrieveDateValueCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.DateValueController

retrieveDateValueCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.DateValueController

retrieveDateValueJson(Integer, String...) - Method in class org.molgenis.controller.DateValueController

retrieveDecimalValue(Integer, String...) - Method in class org.molgenis.controller.DecimalValueController

retrieveDecimalValueCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.DecimalValueController

retrieveDecimalValueCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.DecimalValueController

retrieveDecimalValueCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.DecimalValueController

retrieveDecimalValueCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.DecimalValueController

retrieveDecimalValueJson(Integer, String...) - Method in class org.molgenis.controller.DecimalValueController

retrieveEmailValue(Integer, String...) - Method in class org.molgenis.controller.EmailValueController

retrieveEmailValueCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.EmailValueController

retrieveEmailValueCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.EmailValueController

retrieveEmailValueCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.EmailValueController

retrieveEmailValueCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.EmailValueController

retrieveEmailValueJson(Integer, String...) - Method in class org.molgenis.controller.EmailValueController

retrieveHtmlValue(Integer, String...) - Method in class org.molgenis.controller.HtmlValueController

retrieveHtmlValueCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.HtmlValueController

retrieveHtmlValueCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.HtmlValueController

retrieveHtmlValueCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.HtmlValueController

retrieveHtmlValueCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.HtmlValueController

retrieveHtmlValueJson(Integer, String...) - Method in class org.molgenis.controller.HtmlValueController

retrieveHyperlinkValue(Integer, String...) - Method in class org.molgenis.controller.HyperlinkValueController

retrieveHyperlinkValueCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.HyperlinkValueController

retrieveHyperlinkValueCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.HyperlinkValueController

retrieveHyperlinkValueCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.HyperlinkValueController

retrieveHyperlinkValueCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.HyperlinkValueController

retrieveHyperlinkValueJson(Integer, String...) - Method in class org.molgenis.controller.HyperlinkValueController

retrieveIndividual(Integer, String...) - Method in class org.molgenis.controller.IndividualController

retrieveIndividualCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.IndividualController

retrieveIndividualCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.IndividualController

retrieveIndividualCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.IndividualController

retrieveIndividualCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.IndividualController

retrieveIndividualJson(Integer, String...) - Method in class org.molgenis.controller.IndividualController

retrieveIndividualXrefFather(Integer, String...) - Method in class org.molgenis.controller.IndividualController

retrieveIndividualXrefFatherJson(Integer, String...) - Method in class org.molgenis.controller.IndividualController

retrieveIndividualXrefMother(Integer, String...) - Method in class org.molgenis.controller.IndividualController

retrieveIndividualXrefMotherJson(Integer, String...) - Method in class org.molgenis.controller.IndividualController

retrieveInstitute(Integer, String...) - Method in class org.molgenis.controller.InstituteController

retrieveInstituteCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.InstituteController

retrieveInstituteCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.InstituteController

retrieveInstituteCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.InstituteController

retrieveInstituteCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.InstituteController

retrieveInstituteJson(Integer, String...) - Method in class org.molgenis.controller.InstituteController

retrieveIntValue(Integer, String...) - Method in class org.molgenis.controller.IntValueController

retrieveIntValueCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.IntValueController

retrieveIntValueCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.IntValueController

retrieveIntValueCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.IntValueController

retrieveIntValueCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.IntValueController

retrieveIntValueJson(Integer, String...) - Method in class org.molgenis.controller.IntValueController

retrieveLongValue(Integer, String...) - Method in class org.molgenis.controller.LongValueController

retrieveLongValueCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.LongValueController

retrieveLongValueCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.LongValueController

retrieveLongValueCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.LongValueController

retrieveLongValueCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.LongValueController

retrieveLongValueJson(Integer, String...) - Method in class org.molgenis.controller.LongValueController

retrieveMolgenisFile(Integer, String...) - Method in class org.molgenis.controller.MolgenisFileController

retrieveMolgenisFileCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.MolgenisFileController

retrieveMolgenisFileCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.MolgenisFileController

retrieveMolgenisFileCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.MolgenisFileController

retrieveMolgenisFileCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.MolgenisFileController

retrieveMolgenisFileJson(Integer, String...) - Method in class org.molgenis.controller.MolgenisFileController

retrieveMrefValue(Integer, String...) - Method in class org.molgenis.controller.MrefValueController

retrieveMrefValueCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.MrefValueController

retrieveMrefValueCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.MrefValueController

retrieveMrefValueCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.MrefValueController

retrieveMrefValueCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.MrefValueController

retrieveMrefValueJson(Integer, String...) - Method in class org.molgenis.controller.MrefValueController

retrieveMrefValueMrefValue(Integer, EntityCollectionRequest, String...) - Method in class org.molgenis.controller.MrefValueController

retrieveMrefValueMrefValueJson(Integer, EntityCollectionRequest, String...) - Method in class org.molgenis.controller.MrefValueController

retrieveObservableFeature(Integer, String...) - Method in class org.molgenis.controller.ObservableFeatureController

retrieveObservableFeatureCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ObservableFeatureController

retrieveObservableFeatureCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ObservableFeatureController

retrieveObservableFeatureCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ObservableFeatureController

retrieveObservableFeatureCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ObservableFeatureController

retrieveObservableFeatureJson(Integer, String...) - Method in class org.molgenis.controller.ObservableFeatureController

retrieveObservableFeatureXrefDefinition(Integer, String...) - Method in class org.molgenis.controller.ObservableFeatureController

retrieveObservableFeatureXrefDefinitionJson(Integer, String...) - Method in class org.molgenis.controller.ObservableFeatureController

retrieveObservableFeatureXrefUnit(Integer, String...) - Method in class org.molgenis.controller.ObservableFeatureController

retrieveObservableFeatureXrefUnitJson(Integer, String...) - Method in class org.molgenis.controller.ObservableFeatureController

retrieveObservationSet(Integer, String...) - Method in class org.molgenis.controller.ObservationSetController

retrieveObservationSetCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ObservationSetController

retrieveObservationSetCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ObservationSetController

retrieveObservationSetCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ObservationSetController

retrieveObservationSetCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ObservationSetController

retrieveObservationSetJson(Integer, String...) - Method in class org.molgenis.controller.ObservationSetController

retrieveObservationSetXrefPartOfDataSet(Integer, String...) - Method in class org.molgenis.controller.ObservationSetController

retrieveObservationSetXrefPartOfDataSetJson(Integer, String...) - Method in class org.molgenis.controller.ObservationSetController

retrieveObservationTarget(Integer, String...) - Method in class org.molgenis.controller.ObservationTargetController

retrieveObservationTargetCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ObservationTargetController

retrieveObservationTargetCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ObservationTargetController

retrieveObservationTargetCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ObservationTargetController

retrieveObservationTargetCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ObservationTargetController

retrieveObservationTargetJson(Integer, String...) - Method in class org.molgenis.controller.ObservationTargetController

retrieveObservedValue(Integer, String...) - Method in class org.molgenis.controller.ObservedValueController

retrieveObservedValueCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ObservedValueController

retrieveObservedValueCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ObservedValueController

retrieveObservedValueCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ObservedValueController

retrieveObservedValueCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ObservedValueController

retrieveObservedValueJson(Integer, String...) - Method in class org.molgenis.controller.ObservedValueController

retrieveObservedValueXrefFeature(Integer, String...) - Method in class org.molgenis.controller.ObservedValueController

retrieveObservedValueXrefFeatureJson(Integer, String...) - Method in class org.molgenis.controller.ObservedValueController

retrieveObservedValueXrefObservationSet(Integer, String...) - Method in class org.molgenis.controller.ObservedValueController

retrieveObservedValueXrefObservationSetJson(Integer, String...) - Method in class org.molgenis.controller.ObservedValueController

retrieveObservedValueXrefValue(Integer, String...) - Method in class org.molgenis.controller.ObservedValueController

retrieveObservedValueXrefValueJson(Integer, String...) - Method in class org.molgenis.controller.ObservedValueController

retrieveOntology(Integer, String...) - Method in class org.molgenis.controller.OntologyController

retrieveOntologyCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.OntologyController

retrieveOntologyCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.OntologyController

retrieveOntologyCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.OntologyController

retrieveOntologyCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.OntologyController

retrieveOntologyJson(Integer, String...) - Method in class org.molgenis.controller.OntologyController

retrieveOntologyTerm(Integer, String...) - Method in class org.molgenis.controller.OntologyTermController

retrieveOntologyTermCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.OntologyTermController

retrieveOntologyTermCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.OntologyTermController

retrieveOntologyTermCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.OntologyTermController

retrieveOntologyTermCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.OntologyTermController

retrieveOntologyTermJson(Integer, String...) - Method in class org.molgenis.controller.OntologyTermController

retrieveOntologyTermXrefOntology(Integer, String...) - Method in class org.molgenis.controller.OntologyTermController

retrieveOntologyTermXrefOntologyJson(Integer, String...) - Method in class org.molgenis.controller.OntologyTermController

retrievePanel(Integer, String...) - Method in class org.molgenis.controller.PanelController

retrievePanelCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PanelController

retrievePanelCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PanelController

retrievePanelCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PanelController

retrievePanelCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PanelController

retrievePanelJson(Integer, String...) - Method in class org.molgenis.controller.PanelController

retrievePanelMrefIndividuals(Integer, EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PanelController

retrievePanelMrefIndividualsJson(Integer, EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PanelController

retrievePanelSource(Integer, String...) - Method in class org.molgenis.controller.PanelSourceController

retrievePanelSourceCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PanelSourceController

retrievePanelSourceCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PanelSourceController

retrievePanelSourceCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PanelSourceController

retrievePanelSourceCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PanelSourceController

retrievePanelSourceJson(Integer, String...) - Method in class org.molgenis.controller.PanelSourceController

retrievePanelSourceXrefCurrentPanel(Integer, String...) - Method in class org.molgenis.controller.PanelSourceController

retrievePanelSourceXrefCurrentPanelJson(Integer, String...) - Method in class org.molgenis.controller.PanelSourceController

retrievePanelSourceXrefSourcePanel(Integer, String...) - Method in class org.molgenis.controller.PanelSourceController

retrievePanelSourceXrefSourcePanelJson(Integer, String...) - Method in class org.molgenis.controller.PanelSourceController

retrievePanelXrefPanelType(Integer, String...) - Method in class org.molgenis.controller.PanelController

retrievePanelXrefPanelTypeJson(Integer, String...) - Method in class org.molgenis.controller.PanelController

retrievePanelXrefSpecies(Integer, String...) - Method in class org.molgenis.controller.PanelController

retrievePanelXrefSpeciesJson(Integer, String...) - Method in class org.molgenis.controller.PanelController

retrievePerson(Integer, String...) - Method in class org.molgenis.controller.PersonController

retrievePersonCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PersonController

retrievePersonCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PersonController

retrievePersonCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PersonController

retrievePersonCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PersonController

retrievePersonJson(Integer, String...) - Method in class org.molgenis.controller.PersonController

retrievePersonRole(Integer, String...) - Method in class org.molgenis.controller.PersonRoleController

retrievePersonRoleCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PersonRoleController

retrievePersonRoleCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PersonRoleController

retrievePersonRoleCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PersonRoleController

retrievePersonRoleCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PersonRoleController

retrievePersonRoleJson(Integer, String...) - Method in class org.molgenis.controller.PersonRoleController

retrievePersonRoleXrefOntology(Integer, String...) - Method in class org.molgenis.controller.PersonRoleController

retrievePersonRoleXrefOntologyJson(Integer, String...) - Method in class org.molgenis.controller.PersonRoleController

retrievePersonXrefAffiliation(Integer, String...) - Method in class org.molgenis.controller.PersonController

retrievePersonXrefAffiliationJson(Integer, String...) - Method in class org.molgenis.controller.PersonController

retrievePersonXrefRoles(Integer, String...) - Method in class org.molgenis.controller.PersonController

retrievePersonXrefRolesJson(Integer, String...) - Method in class org.molgenis.controller.PersonController

retrieveProtocol(Integer, String...) - Method in class org.molgenis.controller.ProtocolController

retrieveProtocolCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ProtocolController

retrieveProtocolCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ProtocolController

retrieveProtocolCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ProtocolController

retrieveProtocolCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ProtocolController

retrieveProtocolJson(Integer, String...) - Method in class org.molgenis.controller.ProtocolController

retrieveProtocolMrefFeatures(Integer, EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ProtocolController

retrieveProtocolMrefFeaturesJson(Integer, EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ProtocolController

retrieveProtocolMrefSubprotocols(Integer, EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ProtocolController

retrieveProtocolMrefSubprotocolsJson(Integer, EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ProtocolController

retrieveProtocolXrefProtocolType(Integer, String...) - Method in class org.molgenis.controller.ProtocolController

retrieveProtocolXrefProtocolTypeJson(Integer, String...) - Method in class org.molgenis.controller.ProtocolController

retrieveRuntimeProperty(Integer, String...) - Method in class org.molgenis.controller.RuntimePropertyController

retrieveRuntimePropertyCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.RuntimePropertyController

retrieveRuntimePropertyCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.RuntimePropertyController

retrieveRuntimePropertyCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.RuntimePropertyController

retrieveRuntimePropertyCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.RuntimePropertyController

retrieveRuntimePropertyJson(Integer, String...) - Method in class org.molgenis.controller.RuntimePropertyController

retrieveSpecies(Integer, String...) - Method in class org.molgenis.controller.SpeciesController

retrieveSpeciesCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.SpeciesController

retrieveSpeciesCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.SpeciesController

retrieveSpeciesCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.SpeciesController

retrieveSpeciesCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.SpeciesController

retrieveSpeciesJson(Integer, String...) - Method in class org.molgenis.controller.SpeciesController

retrieveSpeciesXrefOntology(Integer, String...) - Method in class org.molgenis.controller.SpeciesController

retrieveSpeciesXrefOntologyJson(Integer, String...) - Method in class org.molgenis.controller.SpeciesController

retrieveStringValue(Integer, String...) - Method in class org.molgenis.controller.StringValueController

retrieveStringValueCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.StringValueController

retrieveStringValueCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.StringValueController

retrieveStringValueCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.StringValueController

retrieveStringValueCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.StringValueController

retrieveStringValueJson(Integer, String...) - Method in class org.molgenis.controller.StringValueController

retrieveStudyDataRequest(Integer, String...) - Method in class org.molgenis.controller.StudyDataRequestController

retrieveStudyDataRequestCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.StudyDataRequestController

retrieveStudyDataRequestCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.StudyDataRequestController

retrieveStudyDataRequestCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.StudyDataRequestController

retrieveStudyDataRequestCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.StudyDataRequestController

retrieveStudyDataRequestJson(Integer, String...) - Method in class org.molgenis.controller.StudyDataRequestController

retrieveStudyDataRequestMrefFeatures(Integer, EntityCollectionRequest, String...) - Method in class org.molgenis.controller.StudyDataRequestController

retrieveStudyDataRequestMrefFeaturesJson(Integer, EntityCollectionRequest, String...) - Method in class org.molgenis.controller.StudyDataRequestController

retrieveStudyDataRequestXrefMolgenisUser(Integer, String...) - Method in class org.molgenis.controller.StudyDataRequestController

retrieveStudyDataRequestXrefMolgenisUserJson(Integer, String...) - Method in class org.molgenis.controller.StudyDataRequestController

retrieveTextValue(Integer, String...) - Method in class org.molgenis.controller.TextValueController

retrieveTextValueCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.TextValueController

retrieveTextValueCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.TextValueController

retrieveTextValueCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.TextValueController

retrieveTextValueCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.TextValueController

retrieveTextValueJson(Integer, String...) - Method in class org.molgenis.controller.TextValueController

retrieveValue(Integer, String...) - Method in class org.molgenis.controller.ValueController

retrieveValueCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ValueController

retrieveValueCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ValueController

retrieveValueCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ValueController

retrieveValueCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ValueController

retrieveValueJson(Integer, String...) - Method in class org.molgenis.controller.ValueController

retrieveXrefValue(Integer, String...) - Method in class org.molgenis.controller.XrefValueController

retrieveXrefValueCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.XrefValueController

retrieveXrefValueCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.XrefValueController

retrieveXrefValueCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.XrefValueController

retrieveXrefValueCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.XrefValueController

retrieveXrefValueJson(Integer, String...) - Method in class org.molgenis.controller.XrefValueController

retrieveXrefValueXrefValue(Integer, String...) - Method in class org.molgenis.controller.XrefValueController

retrieveXrefValueXrefValueJson(Integer, String...) - Method in class org.molgenis.controller.XrefValueController

RuntimePropertyController - Class in org.molgenis.controller

RuntimePropertyController() - Constructor for class org.molgenis.controller.RuntimePropertyController

RuntimePropertyFormController - Class in org.molgenis.ui

RuntimePropertyFormController() - Constructor for class org.molgenis.ui.RuntimePropertyFormController

RuntimePropertyFormController(ScreenController<?>) - Constructor for class org.molgenis.ui.RuntimePropertyFormController

RuntimePropertySecurityDecorator<E extends RuntimeProperty> - Class in org.molgenis.omx.core.db

TODO add column level security filters

RuntimePropertySecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.core.db.RuntimePropertySecurityDecorator

RuntimePropertyService - Class in org.molgenis.service

RuntimePropertyService() - Constructor for class org.molgenis.service.RuntimePropertyService

S

SampleConverter - Class in org.molgenis.gids.tools.convertor

SampleConverter() - Constructor for class org.molgenis.gids.tools.convertor.SampleConverter

SampleTabOmxConverter - Class in org.molgenis.sampletab

SampleTabOmxConverter(String, String) - Constructor for class org.molgenis.sampletab.SampleTabOmxConverter

service(HttpServletRequest, HttpServletResponse) - Method in class org.molgenis.servlet.FrontController

setAnatomicSource(String) - Method in class org.molgenis.jaxb.SpecimenCollectionSummary

Sets the value of the anatomicSource property.

setBackground(String) - Method in class org.molgenis.omx.plugins.BackgroundPlugin.BackgroundModel

setCity(String) - Method in class org.molgenis.jaxb.Address

Sets the value of the city property.

setContact(String) - Method in class org.molgenis.omx.plugins.ContactPlugin.ContactModel

setCountry(String) - Method in class org.molgenis.jaxb.Address

Sets the value of the country property.

setDateLastUpdated(XMLGregorianCalendar) - Method in class org.molgenis.jaxb.CollectionProtocol

Sets the value of the dateLastUpdated property.

setDepartmentOrDivision(String) - Method in class org.molgenis.jaxb.Address

Sets the value of the departmentOrDivision property.

setDescribesPatientAge(PatientAgeGroupAtCollection.DescribesPatientAge) - Method in class org.molgenis.jaxb.PatientAgeGroupAtCollection

Sets the value of the describesPatientAge property.

setDiagnosisType(String) - Method in class org.molgenis.jaxb.Diagnosis

Sets the value of the diagnosisType property.

setEmailAddress(String) - Method in class org.molgenis.jaxb.Person

Sets the value of the emailAddress property.

setEndDate(XMLGregorianCalendar) - Method in class org.molgenis.jaxb.CollectionProtocol

Sets the value of the endDate property.

setEnrolls(CollectionProtocol.Enrolls) - Method in class org.molgenis.jaxb.CollectionProtocol

Sets the value of the enrolls property.

setEntityName(String) - Method in class org.molgenis.jaxb.Address

Sets the value of the entityName property.

setEntityNumber(String) - Method in class org.molgenis.jaxb.Address

Sets the value of the entityNumber property.

setEthnicity(String) - Method in class org.molgenis.jaxb.ParticipantCollectionSummary

Sets the value of the ethnicity property.

setFirstName(String) - Method in class org.molgenis.jaxb.Person

Sets the value of the firstName property.

setFloorOrPremises(String) - Method in class org.molgenis.jaxb.Address

Sets the value of the floorOrPremises property.

setFullName(String) - Method in class org.molgenis.jaxb.Person

Sets the value of the fullName property.

setGender(String) - Method in class org.molgenis.jaxb.ParticipantCollectionSummary

Sets the value of the gender property.

setHasAdditionalPatientDemographics(Boolean) - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Sets the value of the hasAdditionalPatientDemographics property.

setHasExposureHistory(Boolean) - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Sets the value of the hasExposureHistory property.

setHasFamilyHistory(Boolean) - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Sets the value of the hasFamilyHistory property.

setHasHistopathologicInformation(Boolean) - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Sets the value of the hasHistopathologicInformation property.

setHasLabData(Boolean) - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Sets the value of the hasLabData property.

setHasLongitudinalSpecimens(Boolean) - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Sets the value of the hasLongitudinalSpecimens property.

setHasMatchedSpecimens(Boolean) - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Sets the value of the hasMatchedSpecimens property.

setHasOutcomeInformation(Boolean) - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Sets the value of the hasOutcomeInformation property.

setHasParticipantsAvailableForFollowup(Boolean) - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Sets the value of the hasParticipantsAvailableForFollowup property.

setHasTreatmentInformation(Boolean) - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Sets the value of the hasTreatmentInformation property.

setHomeHtml(String) - Method in class org.molgenis.omx.plugins.HomePlugin.HomeModel

setHomepageURL(String) - Method in class org.molgenis.jaxb.Institution

Sets the value of the homepageURL property.

setHrefLogo(String) - Method in class org.molgenis.omx.plugins.HeaderPlugin.HeaderModel

setId(Integer) - Method in class org.molgenis.jaxb.Address

Sets the value of the id property.

setId(Integer) - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Sets the value of the id property.

setId(Integer) - Method in class org.molgenis.jaxb.CollectionProtocol

Sets the value of the id property.

setId(Integer) - Method in class org.molgenis.jaxb.Diagnosis

Sets the value of the id property.

setId(Integer) - Method in class org.molgenis.jaxb.Organization

Sets the value of the id property.

setId(Integer) - Method in class org.molgenis.jaxb.ParticipantCollectionSummary

Sets the value of the id property.

setId(Integer) - Method in class org.molgenis.jaxb.PatientAgeGroupAtCollection

Sets the value of the id property.

setId(Integer) - Method in class org.molgenis.jaxb.Person

Sets the value of the id property.

setId(Integer) - Method in class org.molgenis.jaxb.Preservation

Sets the value of the id property.

setId(Integer) - Method in class org.molgenis.jaxb.Race

Sets the value of the id property.

setId(Integer) - Method in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

Sets the value of the id property.

setId(Integer) - Method in class org.molgenis.jaxb.SpecimenCollectionSummary

Sets the value of the id property.

setIdentifier(String) - Method in class org.molgenis.jaxb.CollectionProtocol

Sets the value of the identifier property.

setIsAppliedTo(Preservation.IsAppliedTo) - Method in class org.molgenis.jaxb.Preservation

Sets the value of the isAppliedTo property.

setIsAssignedTo(SpecimenCollectionContact) - Method in class org.molgenis.jaxb.CollectionProtocol

Sets the value of the isAssignedTo property.

setIsAvailableToCommercialOrganizations(Boolean) - Method in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

Sets the value of the isAvailableToCommercialOrganizations property.

setIsAvailableToForeignInvestigators(Boolean) - Method in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

Sets the value of the isAvailableToForeignInvestigators property.

setIsAvailableToOutsideInstitution(Boolean) - Method in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

Sets the value of the isAvailableToOutsideInstitution property.

setIsClassifiedBy(ParticipantCollectionSummary.IsClassifiedBy) - Method in class org.molgenis.jaxb.ParticipantCollectionSummary

Sets the value of the isClassifiedBy property.

setIsCollaborationRequired(Boolean) - Method in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

Sets the value of the isCollaborationRequired property.

setIsConstrainedBy(SpecimenAvailabilitySummaryProfile) - Method in class org.molgenis.jaxb.CollectionProtocol

Sets the value of the isConstrainedBy property.

setIsLocatedAt(Address) - Method in class org.molgenis.jaxb.SpecimenCollectionContact

Sets the value of the isLocatedAt property.

setLastName(String) - Method in class org.molgenis.jaxb.Person

Sets the value of the lastName property.

setMakesAvailable(AnnotationAvailabilityProfile) - Method in class org.molgenis.jaxb.CollectionProtocol

Sets the value of the makesAvailable property.

setMiddleNameOrInitial(String) - Method in class org.molgenis.jaxb.Person

Sets the value of the middleNameOrInitial property.

setName(String) - Method in class org.molgenis.jaxb.CollectionProtocol

Sets the value of the name property.

setName(String) - Method in class org.molgenis.jaxb.Organization

Sets the value of the name property.

setNews(String) - Method in class org.molgenis.omx.plugins.NewsPlugin.NewsModel

setParticipantCount(Integer) - Method in class org.molgenis.jaxb.ParticipantCollectionSummary

Sets the value of the participantCount property.

setPatientAgeGroupHigh(Integer) - Method in class org.molgenis.jaxb.PatientAgeGroupAtCollection

Sets the value of the patientAgeGroupHigh property.

setPatientAgeGroupLow(Integer) - Method in class org.molgenis.jaxb.PatientAgeGroupAtCollection

Sets the value of the patientAgeGroupLow property.

setPhone(String) - Method in class org.molgenis.jaxb.SpecimenCollectionContact

Sets the value of the phone property.

setPostOfficeBox(String) - Method in class org.molgenis.jaxb.Address

Sets the value of the postOfficeBox property.

setPreservationType(String) - Method in class org.molgenis.jaxb.Preservation

Sets the value of the preservationType property.

setProtocols(CbmNode.Protocols) - Method in class org.molgenis.jaxb.CbmNode

Sets the value of the protocols property.

setProvides(ParticipantCollectionSummary.Provides) - Method in class org.molgenis.jaxb.ParticipantCollectionSummary

Sets the value of the provides property.

setProvidesInformationTo(AnnotationAvailabilityProfile.ProvidesInformationTo) - Method in class org.molgenis.jaxb.AnnotationAvailabilityProfile

Sets the value of the providesInformationTo property.

setQualifiesPatientAgeAtSpecimenCollection(PatientAgeGroupAtCollection) - Method in class org.molgenis.jaxb.SpecimenCollectionSummary

Sets the value of the qualifiesPatientAgeAtSpecimenCollection property.

setRace(String) - Method in class org.molgenis.jaxb.Race

Sets the value of the race property.

setReceives(ParticipantCollectionSummary.Receives) - Method in class org.molgenis.jaxb.ParticipantCollectionSummary

Sets the value of the receives property.

setReferences(String) - Method in class org.molgenis.omx.plugins.ReferencesPlugin.ReferencesModel

setResidesAt(CollectionProtocol.ResidesAt) - Method in class org.molgenis.jaxb.CollectionProtocol

Sets the value of the residesAt property.

setRestrictsAccessTo(SpecimenAvailabilitySummaryProfile.RestrictsAccessTo) - Method in class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

Sets the value of the restrictsAccessTo property.

setSource(String) - Method in class org.molgenis.jaxb.CbmNode

Sets the value of the source property.

setSpecimenCount(Integer) - Method in class org.molgenis.jaxb.SpecimenCollectionSummary

Sets the value of the specimenCount property.

setSpecimenType(String) - Method in class org.molgenis.jaxb.SpecimenCollectionSummary

Sets the value of the specimenType property.

setStartDate(XMLGregorianCalendar) - Method in class org.molgenis.jaxb.CollectionProtocol

Sets the value of the startDate property.

setState(String) - Method in class org.molgenis.jaxb.Address

Sets the value of the state property.

setStorageTemperatureInCentegrades(Integer) - Method in class org.molgenis.jaxb.Preservation

Sets the value of the storageTemperatureInCentegrades property.

setStreetOrThoroughfareExtensionName(String) - Method in class org.molgenis.jaxb.Address

Sets the value of the streetOrThoroughfareExtensionName property.

setStreetOrThoroughfareNameAndType(String) - Method in class org.molgenis.jaxb.Address

Sets the value of the streetOrThoroughfareNameAndType property.

setStreetOrThoroughfareNumber(String) - Method in class org.molgenis.jaxb.Address

Sets the value of the streetOrThoroughfareNumber property.

setStreetOrThoroughfareSectionName(String) - Method in class org.molgenis.jaxb.Address

Sets the value of the streetOrThoroughfareSectionName property.

setStreetPostDirectional(String) - Method in class org.molgenis.jaxb.Address

Sets the value of the streetPostDirectional property.

setStreetPreDirectional(String) - Method in class org.molgenis.jaxb.Address

Sets the value of the streetPreDirectional property.

setUndergoes(Preservation) - Method in class org.molgenis.jaxb.SpecimenCollectionSummary

Sets the value of the undergoes property.

setZipCode(String) - Method in class org.molgenis.jaxb.Address

Sets the value of the zipCode property.

source - Variable in class org.molgenis.jaxb.CbmNode

SpeciesController - Class in org.molgenis.controller

SpeciesController() - Constructor for class org.molgenis.controller.SpeciesController

SpeciesSecurityDecorator<E extends Species> - Class in org.molgenis.omx.observ.target.db

TODO add column level security filters

SpeciesSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.target.db.SpeciesSecurityDecorator

SpeciesService - Class in org.molgenis.service

SpeciesService() - Constructor for class org.molgenis.service.SpeciesService

SpecimenAvailabilitySummaryProfile - Class in org.molgenis.jaxb

Java class for SpecimenAvailabilitySummaryProfile complex type.

SpecimenAvailabilitySummaryProfile() - Constructor for class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile

SpecimenAvailabilitySummaryProfile.RestrictsAccessTo - Class in org.molgenis.jaxb

Java class for anonymous complex type.

SpecimenAvailabilitySummaryProfile.RestrictsAccessTo() - Constructor for class org.molgenis.jaxb.SpecimenAvailabilitySummaryProfile.RestrictsAccessTo

SpecimenCollectionContact - Class in org.molgenis.jaxb

Java class for SpecimenCollectionContact complex type.

SpecimenCollectionContact() - Constructor for class org.molgenis.jaxb.SpecimenCollectionContact

specimenCollectionSummary - Variable in class org.molgenis.jaxb.ParticipantCollectionSummary.Provides

specimenCollectionSummary - Variable in class org.molgenis.jaxb.PatientAgeGroupAtCollection.DescribesPatientAge

specimenCollectionSummary - Variable in class org.molgenis.jaxb.Preservation.IsAppliedTo

SpecimenCollectionSummary - Class in org.molgenis.jaxb

Java class for SpecimenCollectionSummary complex type.

SpecimenCollectionSummary() - Constructor for class org.molgenis.jaxb.SpecimenCollectionSummary

specimenCount - Variable in class org.molgenis.jaxb.SpecimenCollectionSummary

specimenType - Variable in class org.molgenis.jaxb.SpecimenCollectionSummary

startDate - Variable in class org.molgenis.jaxb.CollectionProtocol

state - Variable in class org.molgenis.jaxb.Address

storageTemperatureInCentegrades - Variable in class org.molgenis.jaxb.Preservation

streetOrThoroughfareExtensionName - Variable in class org.molgenis.jaxb.Address

streetOrThoroughfareNameAndType - Variable in class org.molgenis.jaxb.Address

streetOrThoroughfareNumber - Variable in class org.molgenis.jaxb.Address

streetOrThoroughfareSectionName - Variable in class org.molgenis.jaxb.Address

streetPostDirectional - Variable in class org.molgenis.jaxb.Address

streetPreDirectional - Variable in class org.molgenis.jaxb.Address

StringValueController - Class in org.molgenis.controller

StringValueController() - Constructor for class org.molgenis.controller.StringValueController

StringValueSecurityDecorator<E extends StringValue> - Class in org.molgenis.omx.observ.value.db

TODO add column level security filters

StringValueSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.value.db.StringValueSecurityDecorator

StringValueService - Class in org.molgenis.service

StringValueService() - Constructor for class org.molgenis.service.StringValueService

StudyDataRequestController - Class in org.molgenis.controller

StudyDataRequestController() - Constructor for class org.molgenis.controller.StudyDataRequestController

StudyDataRequestFormController - Class in org.molgenis.ui

StudyDataRequestFormController() - Constructor for class org.molgenis.ui.StudyDataRequestFormController

StudyDataRequestFormController(ScreenController<?>) - Constructor for class org.molgenis.ui.StudyDataRequestFormController

StudyDataRequestSecurityDecorator<E extends StudyDataRequest> - Class in org.molgenis.omx.filter.db

TODO add column level security filters

StudyDataRequestSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.filter.db.StudyDataRequestSecurityDecorator

StudyDataRequestService - Class in org.molgenis.service

StudyDataRequestService() - Constructor for class org.molgenis.service.StudyDataRequestService

T

TextValueController - Class in org.molgenis.controller

TextValueController() - Constructor for class org.molgenis.controller.TextValueController

TextValueSecurityDecorator<E extends TextValue> - Class in org.molgenis.omx.observ.value.db

TODO add column level security filters

TextValueSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.value.db.TextValueSecurityDecorator

TextValueService - Class in org.molgenis.service

TextValueService() - Constructor for class org.molgenis.service.TextValueService

tokenFactory() - Method in class org.molgenis.DatabaseConfig

TokenManagerPluginPlugin - Class in org.molgenis.ui

TokenManagerPluginPlugin(ScreenController<?>) - Constructor for class org.molgenis.ui.TokenManagerPluginPlugin

toList(TupleReader, int) - Method in class org.molgenis.omx.auth.db.InstituteSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.auth.db.MolgenisGroupSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.auth.db.MolgenisPermissionSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.auth.db.MolgenisRoleGroupLinkSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.auth.db.MolgenisRoleSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.auth.db.MolgenisUserSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.auth.db.PersonRoleSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.auth.db.PersonSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.core.db.MolgenisEntitySecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.core.db.MolgenisFileSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.core.db.RuntimePropertySecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.filter.db.StudyDataRequestSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.db.CategorySecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.db.CharacteristicSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.db.DataSetSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.db.ObservableFeatureSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.db.ObservationSetSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.db.ObservationTargetSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.db.ObservedValueSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.db.ProtocolSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.target.db.AccessionSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.target.db.IndividualSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.target.db.OntologySecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.target.db.OntologyTermSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.target.db.PanelSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.target.db.PanelSourceSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.target.db.SpeciesSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.value.db.BoolValueSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.value.db.CategoricalValueSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.value.db.DateTimeValueSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.value.db.DateValueSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.value.db.DecimalValueSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.value.db.EmailValueSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.value.db.HtmlValueSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.value.db.HyperlinkValueSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.value.db.IntValueSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.value.db.LongValueSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.value.db.MrefValueSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.value.db.StringValueSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.value.db.TextValueSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.value.db.ValueSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.observ.value.db.XrefValueSecurityDecorator

U

unauthorizedDatabase() - Method in class org.molgenis.DatabaseConfig

Entitymanager-per-HTTP-request pattern in a multi-user client/server application authenticated for system user

unauthorizedPrototypeDatabase() - Method in class org.molgenis.DatabaseConfig

Entitymanager-per-bean-request pattern in a standalone application Important: User is responsible for closing the Database instance

undergoes - Variable in class org.molgenis.jaxb.SpecimenCollectionSummary

update(List<E>) - Method in class org.molgenis.omx.auth.db.InstituteSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.auth.db.InstituteSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisGroupSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.auth.db.MolgenisGroupSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisPermissionSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.auth.db.MolgenisPermissionSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisRoleGroupLinkSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.auth.db.MolgenisRoleGroupLinkSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisRoleSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.auth.db.MolgenisRoleSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.auth.db.MolgenisUserSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.auth.db.MolgenisUserSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.auth.db.PersonRoleSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.auth.db.PersonRoleSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.auth.db.PersonSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.auth.db.PersonSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.core.db.MolgenisEntitySecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.core.db.MolgenisEntitySecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.core.db.MolgenisFileSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.core.db.MolgenisFileSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.core.db.RuntimePropertySecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.core.db.RuntimePropertySecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.filter.db.StudyDataRequestSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.filter.db.StudyDataRequestSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.db.CategorySecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.db.CategorySecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.db.CharacteristicSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.db.CharacteristicSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.db.DataSetSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.db.DataSetSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.db.ObservableFeatureSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.db.ObservableFeatureSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.db.ObservationSetSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.db.ObservationSetSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.db.ObservationTargetSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.db.ObservationTargetSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.db.ObservedValueSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.db.ObservedValueSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.db.ProtocolSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.db.ProtocolSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.target.db.AccessionSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.target.db.AccessionSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.target.db.IndividualSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.target.db.IndividualSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.target.db.OntologySecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.target.db.OntologySecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.target.db.OntologyTermSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.target.db.OntologyTermSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.target.db.PanelSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.target.db.PanelSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.target.db.PanelSourceSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.target.db.PanelSourceSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.target.db.SpeciesSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.target.db.SpeciesSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.value.db.BoolValueSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.value.db.BoolValueSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.value.db.CategoricalValueSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.value.db.CategoricalValueSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.value.db.DateTimeValueSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.value.db.DateTimeValueSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.value.db.DateValueSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.value.db.DateValueSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.value.db.DecimalValueSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.value.db.DecimalValueSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.value.db.EmailValueSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.value.db.EmailValueSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.value.db.HtmlValueSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.value.db.HtmlValueSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.value.db.HyperlinkValueSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.value.db.HyperlinkValueSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.value.db.IntValueSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.value.db.IntValueSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.value.db.LongValueSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.value.db.LongValueSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.value.db.MrefValueSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.value.db.MrefValueSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.value.db.StringValueSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.value.db.StringValueSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.value.db.TextValueSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.value.db.TextValueSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.value.db.ValueSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.value.db.ValueSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.observ.value.db.XrefValueSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.observ.value.db.XrefValueSecurityDecorator

update(Accession) - Method in class org.molgenis.service.AccessionService

update(BoolValue) - Method in class org.molgenis.service.BoolValueService

update(CategoricalValue) - Method in class org.molgenis.service.CategoricalValueService

update(Category) - Method in class org.molgenis.service.CategoryService

update(Characteristic) - Method in class org.molgenis.service.CharacteristicService

update(DataSet) - Method in class org.molgenis.service.DataSetService

update(DateTimeValue) - Method in class org.molgenis.service.DateTimeValueService

update(DateValue) - Method in class org.molgenis.service.DateValueService

update(DecimalValue) - Method in class org.molgenis.service.DecimalValueService

update(EmailValue) - Method in class org.molgenis.service.EmailValueService

update(HtmlValue) - Method in class org.molgenis.service.HtmlValueService

update(HyperlinkValue) - Method in class org.molgenis.service.HyperlinkValueService

update(Individual) - Method in class org.molgenis.service.IndividualService

update(Institute) - Method in class org.molgenis.service.InstituteService

update(IntValue) - Method in class org.molgenis.service.IntValueService

update(LongValue) - Method in class org.molgenis.service.LongValueService

update(MolgenisFile) - Method in class org.molgenis.service.MolgenisFileService

update(MrefValue) - Method in class org.molgenis.service.MrefValueService

update(ObservableFeature) - Method in class org.molgenis.service.ObservableFeatureService

update(ObservationSet) - Method in class org.molgenis.service.ObservationSetService

update(ObservationTarget) - Method in class org.molgenis.service.ObservationTargetService

update(ObservedValue) - Method in class org.molgenis.service.ObservedValueService

update(Ontology) - Method in class org.molgenis.service.OntologyService

update(OntologyTerm) - Method in class org.molgenis.service.OntologyTermService

update(Panel) - Method in class org.molgenis.service.PanelService

update(PanelSource) - Method in class org.molgenis.service.PanelSourceService

update(PersonRole) - Method in class org.molgenis.service.PersonRoleService

update(Person) - Method in class org.molgenis.service.PersonService

update(Protocol) - Method in class org.molgenis.service.ProtocolService

update(RuntimeProperty) - Method in class org.molgenis.service.RuntimePropertyService

update(Species) - Method in class org.molgenis.service.SpeciesService

update(StringValue) - Method in class org.molgenis.service.StringValueService

update(StudyDataRequest) - Method in class org.molgenis.service.StudyDataRequestService

update(TextValue) - Method in class org.molgenis.service.TextValueService

update(Value) - Method in class org.molgenis.service.ValueService

update(XrefValue) - Method in class org.molgenis.service.XrefValueService

updateAccession(Integer, AccessionController.AccessionRequest) - Method in class org.molgenis.controller.AccessionController

updateAccessionFromForm(Integer, String, AccessionController.AccessionRequest) - Method in class org.molgenis.controller.AccessionController

updateAccessionFromFormPost(Integer, AccessionController.AccessionRequest) - Method in class org.molgenis.controller.AccessionController

updateAccessionPost(Integer, AccessionController.AccessionRequest) - Method in class org.molgenis.controller.AccessionController

updateBoolValue(Integer, BoolValueController.BoolValueRequest) - Method in class org.molgenis.controller.BoolValueController

updateBoolValueFromForm(Integer, String, BoolValueController.BoolValueRequest) - Method in class org.molgenis.controller.BoolValueController

updateBoolValueFromFormPost(Integer, BoolValueController.BoolValueRequest) - Method in class org.molgenis.controller.BoolValueController

updateBoolValuePost(Integer, BoolValueController.BoolValueRequest) - Method in class org.molgenis.controller.BoolValueController

updateCategoricalValue(Integer, CategoricalValueController.CategoricalValueRequest) - Method in class org.molgenis.controller.CategoricalValueController

updateCategoricalValueFromForm(Integer, String, CategoricalValueController.CategoricalValueRequest) - Method in class org.molgenis.controller.CategoricalValueController

updateCategoricalValueFromFormPost(Integer, CategoricalValueController.CategoricalValueRequest) - Method in class org.molgenis.controller.CategoricalValueController

updateCategoricalValuePost(Integer, CategoricalValueController.CategoricalValueRequest) - Method in class org.molgenis.controller.CategoricalValueController

updateCategory(Integer, CategoryController.CategoryRequest) - Method in class org.molgenis.controller.CategoryController

updateCategoryFromForm(Integer, String, CategoryController.CategoryRequest) - Method in class org.molgenis.controller.CategoryController

updateCategoryFromFormPost(Integer, CategoryController.CategoryRequest) - Method in class org.molgenis.controller.CategoryController

updateCategoryPost(Integer, CategoryController.CategoryRequest) - Method in class org.molgenis.controller.CategoryController

updateCharacteristic(Integer, CharacteristicController.CharacteristicRequest) - Method in class org.molgenis.controller.CharacteristicController

updateCharacteristicFromForm(Integer, String, CharacteristicController.CharacteristicRequest) - Method in class org.molgenis.controller.CharacteristicController

updateCharacteristicFromFormPost(Integer, CharacteristicController.CharacteristicRequest) - Method in class org.molgenis.controller.CharacteristicController

updateCharacteristicPost(Integer, CharacteristicController.CharacteristicRequest) - Method in class org.molgenis.controller.CharacteristicController

updateDataSet(Integer, DataSetController.DataSetRequest) - Method in class org.molgenis.controller.DataSetController

updateDataSetFromForm(Integer, String, DataSetController.DataSetRequest) - Method in class org.molgenis.controller.DataSetController

updateDataSetFromFormPost(Integer, DataSetController.DataSetRequest) - Method in class org.molgenis.controller.DataSetController

updateDataSetPost(Integer, DataSetController.DataSetRequest) - Method in class org.molgenis.controller.DataSetController

updateDateTimeValue(Integer, DateTimeValueController.DateTimeValueRequest) - Method in class org.molgenis.controller.DateTimeValueController

updateDateTimeValueFromForm(Integer, String, DateTimeValueController.DateTimeValueRequest) - Method in class org.molgenis.controller.DateTimeValueController

updateDateTimeValueFromFormPost(Integer, DateTimeValueController.DateTimeValueRequest) - Method in class org.molgenis.controller.DateTimeValueController

updateDateTimeValuePost(Integer, DateTimeValueController.DateTimeValueRequest) - Method in class org.molgenis.controller.DateTimeValueController

updateDateValue(Integer, DateValueController.DateValueRequest) - Method in class org.molgenis.controller.DateValueController

updateDateValueFromForm(Integer, String, DateValueController.DateValueRequest) - Method in class org.molgenis.controller.DateValueController

updateDateValueFromFormPost(Integer, DateValueController.DateValueRequest) - Method in class org.molgenis.controller.DateValueController

updateDateValuePost(Integer, DateValueController.DateValueRequest) - Method in class org.molgenis.controller.DateValueController

updateDecimalValue(Integer, DecimalValueController.DecimalValueRequest) - Method in class org.molgenis.controller.DecimalValueController

updateDecimalValueFromForm(Integer, String, DecimalValueController.DecimalValueRequest) - Method in class org.molgenis.controller.DecimalValueController

updateDecimalValueFromFormPost(Integer, DecimalValueController.DecimalValueRequest) - Method in class org.molgenis.controller.DecimalValueController

updateDecimalValuePost(Integer, DecimalValueController.DecimalValueRequest) - Method in class org.molgenis.controller.DecimalValueController

updateEmailValue(Integer, EmailValueController.EmailValueRequest) - Method in class org.molgenis.controller.EmailValueController

updateEmailValueFromForm(Integer, String, EmailValueController.EmailValueRequest) - Method in class org.molgenis.controller.EmailValueController

updateEmailValueFromFormPost(Integer, EmailValueController.EmailValueRequest) - Method in class org.molgenis.controller.EmailValueController

updateEmailValuePost(Integer, EmailValueController.EmailValueRequest) - Method in class org.molgenis.controller.EmailValueController

updateHtmlValue(Integer, HtmlValueController.HtmlValueRequest) - Method in class org.molgenis.controller.HtmlValueController

updateHtmlValueFromForm(Integer, String, HtmlValueController.HtmlValueRequest) - Method in class org.molgenis.controller.HtmlValueController

updateHtmlValueFromFormPost(Integer, HtmlValueController.HtmlValueRequest) - Method in class org.molgenis.controller.HtmlValueController

updateHtmlValuePost(Integer, HtmlValueController.HtmlValueRequest) - Method in class org.molgenis.controller.HtmlValueController

updateHyperlinkValue(Integer, HyperlinkValueController.HyperlinkValueRequest) - Method in class org.molgenis.controller.HyperlinkValueController

updateHyperlinkValueFromForm(Integer, String, HyperlinkValueController.HyperlinkValueRequest) - Method in class org.molgenis.controller.HyperlinkValueController

updateHyperlinkValueFromFormPost(Integer, HyperlinkValueController.HyperlinkValueRequest) - Method in class org.molgenis.controller.HyperlinkValueController

updateHyperlinkValuePost(Integer, HyperlinkValueController.HyperlinkValueRequest) - Method in class org.molgenis.controller.HyperlinkValueController

updateIndividual(Integer, IndividualController.IndividualRequest) - Method in class org.molgenis.controller.IndividualController

updateIndividualFromForm(Integer, String, IndividualController.IndividualRequest) - Method in class org.molgenis.controller.IndividualController

updateIndividualFromFormPost(Integer, IndividualController.IndividualRequest) - Method in class org.molgenis.controller.IndividualController

updateIndividualPost(Integer, IndividualController.IndividualRequest) - Method in class org.molgenis.controller.IndividualController

updateInstitute(Integer, InstituteController.InstituteRequest) - Method in class org.molgenis.controller.InstituteController

updateInstituteFromForm(Integer, String, InstituteController.InstituteRequest) - Method in class org.molgenis.controller.InstituteController

updateInstituteFromFormPost(Integer, InstituteController.InstituteRequest) - Method in class org.molgenis.controller.InstituteController

updateInstitutePost(Integer, InstituteController.InstituteRequest) - Method in class org.molgenis.controller.InstituteController

updateIntValue(Integer, IntValueController.IntValueRequest) - Method in class org.molgenis.controller.IntValueController

updateIntValueFromForm(Integer, String, IntValueController.IntValueRequest) - Method in class org.molgenis.controller.IntValueController

updateIntValueFromFormPost(Integer, IntValueController.IntValueRequest) - Method in class org.molgenis.controller.IntValueController

updateIntValuePost(Integer, IntValueController.IntValueRequest) - Method in class org.molgenis.controller.IntValueController

updateLongValue(Integer, LongValueController.LongValueRequest) - Method in class org.molgenis.controller.LongValueController

updateLongValueFromForm(Integer, String, LongValueController.LongValueRequest) - Method in class org.molgenis.controller.LongValueController

updateLongValueFromFormPost(Integer, LongValueController.LongValueRequest) - Method in class org.molgenis.controller.LongValueController

updateLongValuePost(Integer, LongValueController.LongValueRequest) - Method in class org.molgenis.controller.LongValueController

updateMolgenisFile(Integer, MolgenisFileController.MolgenisFileRequest) - Method in class org.molgenis.controller.MolgenisFileController

updateMolgenisFileFromForm(Integer, String, MolgenisFileController.MolgenisFileRequest) - Method in class org.molgenis.controller.MolgenisFileController

updateMolgenisFileFromFormPost(Integer, MolgenisFileController.MolgenisFileRequest) - Method in class org.molgenis.controller.MolgenisFileController

updateMolgenisFilePost(Integer, MolgenisFileController.MolgenisFileRequest) - Method in class org.molgenis.controller.MolgenisFileController

updateMrefValue(Integer, MrefValueController.MrefValueRequest) - Method in class org.molgenis.controller.MrefValueController

updateMrefValueFromForm(Integer, String, MrefValueController.MrefValueRequest) - Method in class org.molgenis.controller.MrefValueController

updateMrefValueFromFormPost(Integer, MrefValueController.MrefValueRequest) - Method in class org.molgenis.controller.MrefValueController

updateMrefValuePost(Integer, MrefValueController.MrefValueRequest) - Method in class org.molgenis.controller.MrefValueController

updateObservableFeature(Integer, ObservableFeatureController.ObservableFeatureRequest) - Method in class org.molgenis.controller.ObservableFeatureController

updateObservableFeatureFromForm(Integer, String, ObservableFeatureController.ObservableFeatureRequest) - Method in class org.molgenis.controller.ObservableFeatureController

updateObservableFeatureFromFormPost(Integer, ObservableFeatureController.ObservableFeatureRequest) - Method in class org.molgenis.controller.ObservableFeatureController

updateObservableFeaturePost(Integer, ObservableFeatureController.ObservableFeatureRequest) - Method in class org.molgenis.controller.ObservableFeatureController

updateObservationSet(Integer, ObservationSetController.ObservationSetRequest) - Method in class org.molgenis.controller.ObservationSetController

updateObservationSetFromForm(Integer, String, ObservationSetController.ObservationSetRequest) - Method in class org.molgenis.controller.ObservationSetController

updateObservationSetFromFormPost(Integer, ObservationSetController.ObservationSetRequest) - Method in class org.molgenis.controller.ObservationSetController

updateObservationSetPost(Integer, ObservationSetController.ObservationSetRequest) - Method in class org.molgenis.controller.ObservationSetController

updateObservationTarget(Integer, ObservationTargetController.ObservationTargetRequest) - Method in class org.molgenis.controller.ObservationTargetController

updateObservationTargetFromForm(Integer, String, ObservationTargetController.ObservationTargetRequest) - Method in class org.molgenis.controller.ObservationTargetController

updateObservationTargetFromFormPost(Integer, ObservationTargetController.ObservationTargetRequest) - Method in class org.molgenis.controller.ObservationTargetController

updateObservationTargetPost(Integer, ObservationTargetController.ObservationTargetRequest) - Method in class org.molgenis.controller.ObservationTargetController

updateObservedValue(Integer, ObservedValueController.ObservedValueRequest) - Method in class org.molgenis.controller.ObservedValueController

updateObservedValueFromForm(Integer, String, ObservedValueController.ObservedValueRequest) - Method in class org.molgenis.controller.ObservedValueController

updateObservedValueFromFormPost(Integer, ObservedValueController.ObservedValueRequest) - Method in class org.molgenis.controller.ObservedValueController

updateObservedValuePost(Integer, ObservedValueController.ObservedValueRequest) - Method in class org.molgenis.controller.ObservedValueController

updateOntology(Integer, OntologyController.OntologyRequest) - Method in class org.molgenis.controller.OntologyController

updateOntologyFromForm(Integer, String, OntologyController.OntologyRequest) - Method in class org.molgenis.controller.OntologyController

updateOntologyFromFormPost(Integer, OntologyController.OntologyRequest) - Method in class org.molgenis.controller.OntologyController

updateOntologyPost(Integer, OntologyController.OntologyRequest) - Method in class org.molgenis.controller.OntologyController

updateOntologyTerm(Integer, OntologyTermController.OntologyTermRequest) - Method in class org.molgenis.controller.OntologyTermController

updateOntologyTermFromForm(Integer, String, OntologyTermController.OntologyTermRequest) - Method in class org.molgenis.controller.OntologyTermController

updateOntologyTermFromFormPost(Integer, OntologyTermController.OntologyTermRequest) - Method in class org.molgenis.controller.OntologyTermController

updateOntologyTermPost(Integer, OntologyTermController.OntologyTermRequest) - Method in class org.molgenis.controller.OntologyTermController

updatePanel(Integer, PanelController.PanelRequest) - Method in class org.molgenis.controller.PanelController

updatePanelFromForm(Integer, String, PanelController.PanelRequest) - Method in class org.molgenis.controller.PanelController

updatePanelFromFormPost(Integer, PanelController.PanelRequest) - Method in class org.molgenis.controller.PanelController

updatePanelPost(Integer, PanelController.PanelRequest) - Method in class org.molgenis.controller.PanelController

updatePanelSource(Integer, PanelSourceController.PanelSourceRequest) - Method in class org.molgenis.controller.PanelSourceController

updatePanelSourceFromForm(Integer, String, PanelSourceController.PanelSourceRequest) - Method in class org.molgenis.controller.PanelSourceController

updatePanelSourceFromFormPost(Integer, PanelSourceController.PanelSourceRequest) - Method in class org.molgenis.controller.PanelSourceController

updatePanelSourcePost(Integer, PanelSourceController.PanelSourceRequest) - Method in class org.molgenis.controller.PanelSourceController

updatePerson(Integer, PersonController.PersonRequest) - Method in class org.molgenis.controller.PersonController

updatePersonFromForm(Integer, String, PersonController.PersonRequest) - Method in class org.molgenis.controller.PersonController

updatePersonFromFormPost(Integer, PersonController.PersonRequest) - Method in class org.molgenis.controller.PersonController

updatePersonPost(Integer, PersonController.PersonRequest) - Method in class org.molgenis.controller.PersonController

updatePersonRole(Integer, PersonRoleController.PersonRoleRequest) - Method in class org.molgenis.controller.PersonRoleController

updatePersonRoleFromForm(Integer, String, PersonRoleController.PersonRoleRequest) - Method in class org.molgenis.controller.PersonRoleController

updatePersonRoleFromFormPost(Integer, PersonRoleController.PersonRoleRequest) - Method in class org.molgenis.controller.PersonRoleController

updatePersonRolePost(Integer, PersonRoleController.PersonRoleRequest) - Method in class org.molgenis.controller.PersonRoleController

updateProtocol(Integer, ProtocolController.ProtocolRequest) - Method in class org.molgenis.controller.ProtocolController

updateProtocolFromForm(Integer, String, ProtocolController.ProtocolRequest) - Method in class org.molgenis.controller.ProtocolController

updateProtocolFromFormPost(Integer, ProtocolController.ProtocolRequest) - Method in class org.molgenis.controller.ProtocolController

updateProtocolPost(Integer, ProtocolController.ProtocolRequest) - Method in class org.molgenis.controller.ProtocolController

updateRuntimeProperty(Integer, RuntimePropertyController.RuntimePropertyRequest) - Method in class org.molgenis.controller.RuntimePropertyController

updateRuntimePropertyFromForm(Integer, String, RuntimePropertyController.RuntimePropertyRequest) - Method in class org.molgenis.controller.RuntimePropertyController

updateRuntimePropertyFromFormPost(Integer, RuntimePropertyController.RuntimePropertyRequest) - Method in class org.molgenis.controller.RuntimePropertyController

updateRuntimePropertyPost(Integer, RuntimePropertyController.RuntimePropertyRequest) - Method in class org.molgenis.controller.RuntimePropertyController

updateSpecies(Integer, SpeciesController.SpeciesRequest) - Method in class org.molgenis.controller.SpeciesController

updateSpeciesFromForm(Integer, String, SpeciesController.SpeciesRequest) - Method in class org.molgenis.controller.SpeciesController

updateSpeciesFromFormPost(Integer, SpeciesController.SpeciesRequest) - Method in class org.molgenis.controller.SpeciesController

updateSpeciesPost(Integer, SpeciesController.SpeciesRequest) - Method in class org.molgenis.controller.SpeciesController

updateStringValue(Integer, StringValueController.StringValueRequest) - Method in class org.molgenis.controller.StringValueController

updateStringValueFromForm(Integer, String, StringValueController.StringValueRequest) - Method in class org.molgenis.controller.StringValueController

updateStringValueFromFormPost(Integer, StringValueController.StringValueRequest) - Method in class org.molgenis.controller.StringValueController

updateStringValuePost(Integer, StringValueController.StringValueRequest) - Method in class org.molgenis.controller.StringValueController

updateStudyDataRequest(Integer, StudyDataRequestController.StudyDataRequestRequest) - Method in class org.molgenis.controller.StudyDataRequestController

updateStudyDataRequestFromForm(Integer, String, StudyDataRequestController.StudyDataRequestRequest) - Method in class org.molgenis.controller.StudyDataRequestController

updateStudyDataRequestFromFormPost(Integer, StudyDataRequestController.StudyDataRequestRequest) - Method in class org.molgenis.controller.StudyDataRequestController

updateStudyDataRequestPost(Integer, StudyDataRequestController.StudyDataRequestRequest) - Method in class org.molgenis.controller.StudyDataRequestController

updateTextValue(Integer, TextValueController.TextValueRequest) - Method in class org.molgenis.controller.TextValueController

updateTextValueFromForm(Integer, String, TextValueController.TextValueRequest) - Method in class org.molgenis.controller.TextValueController

updateTextValueFromFormPost(Integer, TextValueController.TextValueRequest) - Method in class org.molgenis.controller.TextValueController

updateTextValuePost(Integer, TextValueController.TextValueRequest) - Method in class org.molgenis.controller.TextValueController

updateValue(Integer, ValueController.ValueRequest) - Method in class org.molgenis.controller.ValueController

updateValueFromForm(Integer, String, ValueController.ValueRequest) - Method in class org.molgenis.controller.ValueController

updateValueFromFormPost(Integer, ValueController.ValueRequest) - Method in class org.molgenis.controller.ValueController

updateValuePost(Integer, ValueController.ValueRequest) - Method in class org.molgenis.controller.ValueController

updateXrefValue(Integer, XrefValueController.XrefValueRequest) - Method in class org.molgenis.controller.XrefValueController

updateXrefValueFromForm(Integer, String, XrefValueController.XrefValueRequest) - Method in class org.molgenis.controller.XrefValueController

updateXrefValueFromFormPost(Integer, XrefValueController.XrefValueRequest) - Method in class org.molgenis.controller.XrefValueController

updateXrefValuePost(Integer, XrefValueController.XrefValueRequest) - Method in class org.molgenis.controller.XrefValueController

UploadWizardPlugin - Class in org.molgenis.ui

UploadWizardPlugin(ScreenController<?>) - Constructor for class org.molgenis.ui.UploadWizardPlugin

UsedMolgenisOptions - Class in org.molgenis.servlet

UsedMolgenisOptions() - Constructor for class org.molgenis.servlet.UsedMolgenisOptions

Generated constructor for MolgenisOptions, setting the options used when the application was generated to a MolgenisOptions object.

UserLoginPlugin - Class in org.molgenis.ui

UserLoginPlugin(ScreenController<?>) - Constructor for class org.molgenis.ui.UserLoginPlugin

UserToPersonPluginPlugin - Class in org.molgenis.ui

UserToPersonPluginPlugin(ScreenController<?>) - Constructor for class org.molgenis.ui.UserToPersonPluginPlugin

V

validate(File) - Method in class org.molgenis.EntitiesValidatorImpl

Validation_Main - Class in org.molgenis.gids.tools.compare

Validation_Main() - Constructor for class org.molgenis.gids.tools.compare.Validation_Main

ValidationChecker - Class in org.molgenis.gids.tools.compare

This script is created to compare 2 excelfiles.

ValidationChecker() - Constructor for class org.molgenis.gids.tools.compare.ValidationChecker

ValidationFile - Class in org.molgenis.gids.tools.compare

put in a hashmap

ValidationFile() - Constructor for class org.molgenis.gids.tools.compare.ValidationFile

ValueController - Class in org.molgenis.controller

ValueController() - Constructor for class org.molgenis.controller.ValueController

ValueFormController - Class in org.molgenis.ui

ValueFormController() - Constructor for class org.molgenis.ui.ValueFormController

ValueFormController(ScreenController<?>) - Constructor for class org.molgenis.ui.ValueFormController

ValueSecurityDecorator<E extends Value> - Class in org.molgenis.omx.observ.value.db

TODO add column level security filters

ValueSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.value.db.ValueSecurityDecorator

ValueService - Class in org.molgenis.service

ValueService() - Constructor for class org.molgenis.service.ValueService

viewResolver() - Method in class org.molgenis.omx.WebAppConfig

Enable spring freemarker viewresolver.

W

WebAppConfig - Class in org.molgenis.omx

WebAppConfig() - Constructor for class org.molgenis.omx.WebAppConfig

WebAppConfig.RootController - Class in org.molgenis.omx

Redirects '/' to the Home plugin

WebAppConfig.RootController() - Constructor for class org.molgenis.omx.WebAppConfig.RootController

WebAppDatabasePopulator - Class in org.molgenis.omx

WebAppDatabasePopulator() - Constructor for class org.molgenis.omx.WebAppDatabasePopulator

WebAppInitializer - Class in org.molgenis.omx

WebAppInitializer() - Constructor for class org.molgenis.omx.WebAppInitializer

X

XrefValueController - Class in org.molgenis.controller

XrefValueController() - Constructor for class org.molgenis.controller.XrefValueController

XrefValueSecurityDecorator<E extends XrefValue> - Class in org.molgenis.omx.observ.value.db

TODO add column level security filters

XrefValueSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.observ.value.db.XrefValueSecurityDecorator

XrefValueService - Class in org.molgenis.service

XrefValueService() - Constructor for class org.molgenis.service.XrefValueService

Z

zipCode - Variable in class org.molgenis.jaxb.Address

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