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

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.ngs.decorators.FlowcellDecorator

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.ngs.db.CapturingKitSecurityDecorator

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.ngs.db.CapturingKitSecurityDecorator

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

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneSecurityDecorator

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

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.ngs.db.FlowcellSecurityDecorator

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

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.ngs.db.MachineSecurityDecorator

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

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.ngs.db.NgsUserSecurityDecorator

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

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.ngs.db.PrepKitSecurityDecorator

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

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistSecurityDecorator

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

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.ngs.db.ProjectSecurityDecorator

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

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolSecurityDecorator

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

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeSecurityDecorator

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

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeSecurityDecorator

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

add(TupleReader, TupleWriter) - Method in class org.molgenis.omx.ngs.db.SampleSecurityDecorator

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

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

applicationContextProvider() - Method in class org.molgenis.ngs.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

ARRAYFILE - Static variable in class org.molgenis.omx.ngs.Sample

ARRAYID - Static variable in class org.molgenis.omx.ngs.Sample

AUTOID - Static variable in class org.molgenis.omx.ngs.Project_ProjectAnalist

AUTOID - Static variable in class org.molgenis.omx.ngs.Sample_SampleInPool

B

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

CapturingKit - Class in org.molgenis.omx.ngs

CapturingKit: .

CapturingKit() - Constructor for class org.molgenis.omx.ngs.CapturingKit

CapturingKit(CapturingKit) - Constructor for class org.molgenis.omx.ngs.CapturingKit

copy constructor

CAPTURINGKIT - Static variable in class org.molgenis.omx.ngs.Sample

CAPTURINGKIT_CAPTURINGKITNAME - Static variable in class org.molgenis.omx.ngs.Sample

CapturingKitController - Class in org.molgenis.controller

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

CapturingKitEntityImporter - Class in org.molgenis.omx.ngs.db

Reads CapturingKit from a delimited (csv) file, resolving xrefs to ids where needed, that is the tricky bit ;-)

CapturingKitEntityImporter() - Constructor for class org.molgenis.omx.ngs.db.CapturingKitEntityImporter

CapturingKitForm - Class in org.molgenis.omx.ngs.ui

A HtmlForm that is preloaded with all inputs for entity CapturingKit

CapturingKitForm() - Constructor for class org.molgenis.omx.ngs.ui.CapturingKitForm

CapturingKitForm(CapturingKit) - Constructor for class org.molgenis.omx.ngs.ui.CapturingKitForm

CapturingKitJpaMapper - Class in org.molgenis.omx.ngs.db

CapturingKitJpaMapper(Database) - Constructor for class org.molgenis.omx.ngs.db.CapturingKitJpaMapper

CAPTURINGKITNAME - Static variable in class org.molgenis.omx.ngs.CapturingKit

CapturingKitSecurityDecorator<E extends CapturingKit> - Class in org.molgenis.omx.ngs.db

TODO add column level security filters

CapturingKitSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.ngs.db.CapturingKitSecurityDecorator

CapturingKitService - Class in org.molgenis.service

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

CapturingKitsFormController - Class in org.molgenis.ui

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

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

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

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

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

checkFlowcellName(String) - Method in class org.molgenis.ngs.decorators.ValidateFlowcellValue

checkRunNr(String) - Method in class org.molgenis.ngs.decorators.ValidateFlowcellValue

ConfigurationMenu - Class in org.molgenis.ui

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

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

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

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

copyHelper(File, File, boolean) - Static method in class org.molgenis.ngs.services.PerformUpload

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.ngs.db.CapturingKitSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.ngs.db.FlowcellSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.ngs.db.MachineSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.ngs.db.NgsUserSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.ngs.db.PrepKitSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.ngs.db.ProjectSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeSecurityDecorator

count(QueryRule...) - Method in class org.molgenis.omx.ngs.db.SampleSecurityDecorator

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

create(Tuple) - Method in class org.molgenis.omx.ngs.CapturingKit

create(CapturingKit) - Method in class org.molgenis.omx.ngs.db.CapturingKitJpaMapper

This method first saves the objects that are being refered to by entity, then the entity itself and finally the objects that refer to this object

create() - Method in class org.molgenis.omx.ngs.db.CapturingKitJpaMapper

create(Flowcell) - Method in class org.molgenis.omx.ngs.db.FlowcellJpaMapper

This method first saves the objects that are being refered to by entity, then the entity itself and finally the objects that refer to this object

create() - Method in class org.molgenis.omx.ngs.db.FlowcellJpaMapper

create(FlowcellLane) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneJpaMapper

This method first saves the objects that are being refered to by entity, then the entity itself and finally the objects that refer to this object

create() - Method in class org.molgenis.omx.ngs.db.FlowcellLaneJpaMapper

create(Machine) - Method in class org.molgenis.omx.ngs.db.MachineJpaMapper

This method first saves the objects that are being refered to by entity, then the entity itself and finally the objects that refer to this object

create() - Method in class org.molgenis.omx.ngs.db.MachineJpaMapper

create(NgsUser) - Method in class org.molgenis.omx.ngs.db.NgsUserJpaMapper

This method first saves the objects that are being refered to by entity, then the entity itself and finally the objects that refer to this object

create() - Method in class org.molgenis.omx.ngs.db.NgsUserJpaMapper

create(PrepKit) - Method in class org.molgenis.omx.ngs.db.PrepKitJpaMapper

This method first saves the objects that are being refered to by entity, then the entity itself and finally the objects that refer to this object

create() - Method in class org.molgenis.omx.ngs.db.PrepKitJpaMapper

create(Project_ProjectAnalist) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistJpaMapper

This method first saves the objects that are being refered to by entity, then the entity itself and finally the objects that refer to this object

create() - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistJpaMapper

create(Project) - Method in class org.molgenis.omx.ngs.db.ProjectJpaMapper

This method first saves the objects that are being refered to by entity, then the entity itself and finally the objects that refer to this object

create() - Method in class org.molgenis.omx.ngs.db.ProjectJpaMapper

create(Sample_SampleInPool) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolJpaMapper

This method first saves the objects that are being refered to by entity, then the entity itself and finally the objects that refer to this object

create() - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolJpaMapper

create(SampleBarcode) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeJpaMapper

This method first saves the objects that are being refered to by entity, then the entity itself and finally the objects that refer to this object

create() - Method in class org.molgenis.omx.ngs.db.SampleBarcodeJpaMapper

create(SampleBarcodeType) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeJpaMapper

This method first saves the objects that are being refered to by entity, then the entity itself and finally the objects that refer to this object

create() - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeJpaMapper

create(Sample) - Method in class org.molgenis.omx.ngs.db.SampleJpaMapper

This method first saves the objects that are being refered to by entity, then the entity itself and finally the objects that refer to this object

create() - Method in class org.molgenis.omx.ngs.db.SampleJpaMapper

create(Tuple) - Method in class org.molgenis.omx.ngs.Flowcell

create(Tuple) - Method in class org.molgenis.omx.ngs.FlowcellLane

create(Tuple) - Method in class org.molgenis.omx.ngs.Machine

create(Tuple) - Method in class org.molgenis.omx.ngs.NgsUser

create(Tuple) - Method in class org.molgenis.omx.ngs.PrepKit

create(Tuple) - Method in class org.molgenis.omx.ngs.Project

create(Tuple) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

create(Tuple) - Method in class org.molgenis.omx.ngs.Sample

create(Tuple) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

create(Tuple) - Method in class org.molgenis.omx.ngs.SampleBarcode

create(Tuple) - Method in class org.molgenis.omx.ngs.SampleBarcodeType

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

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

create(CapturingKit) - Method in class org.molgenis.service.CapturingKitService

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(FlowcellLane) - Method in class org.molgenis.service.FlowcellLaneService

create(Flowcell) - Method in class org.molgenis.service.FlowcellService

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(Machine) - Method in class org.molgenis.service.MachineService

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

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

create(NgsUser) - Method in class org.molgenis.service.NgsUserService

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(PrepKit) - Method in class org.molgenis.service.PrepKitService

create(Project) - Method in class org.molgenis.service.ProjectService

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

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

create(SampleBarcode) - Method in class org.molgenis.service.SampleBarcodeService

create(SampleBarcodeType) - Method in class org.molgenis.service.SampleBarcodeTypeService

create(Sample) - Method in class org.molgenis.service.SampleService

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

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

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

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

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

createCapturingKit(CapturingKitController.CapturingKitRequest) - Method in class org.molgenis.controller.CapturingKitController

createCapturingKitFromForm(CapturingKitController.CapturingKitRequest) - Method in class org.molgenis.controller.CapturingKitController

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

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

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

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

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.ngs.db.CapturingKitJpaMapper

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.CapturingKitSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.FlowcellJpaMapper

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneJpaMapper

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.FlowcellSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.MachineJpaMapper

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.MachineSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.NgsUserJpaMapper

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.NgsUserSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.PrepKitJpaMapper

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.PrepKitSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistJpaMapper

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.ProjectJpaMapper

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.ProjectSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolJpaMapper

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeJpaMapper

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeJpaMapper

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeSecurityDecorator

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.SampleJpaMapper

createFindSqlInclRules(QueryRule[]) - Method in class org.molgenis.omx.ngs.db.SampleSecurityDecorator

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

createFlowcell(FlowcellController.FlowcellRequest) - Method in class org.molgenis.controller.FlowcellController

createFlowcellFromForm(FlowcellController.FlowcellRequest) - Method in class org.molgenis.controller.FlowcellController

createFlowcellLane(FlowcellLaneController.FlowcellLaneRequest) - Method in class org.molgenis.controller.FlowcellLaneController

createFlowcellLaneFromForm(FlowcellLaneController.FlowcellLaneRequest) - Method in class org.molgenis.controller.FlowcellLaneController

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

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

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

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

createList(int) - Method in class org.molgenis.omx.ngs.db.CapturingKitJpaMapper

Return EMPTY list of given allocated size

createList(int) - Method in class org.molgenis.omx.ngs.db.FlowcellJpaMapper

Return EMPTY list of given allocated size

createList(int) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneJpaMapper

Return EMPTY list of given allocated size

createList(int) - Method in class org.molgenis.omx.ngs.db.MachineJpaMapper

Return EMPTY list of given allocated size

createList(int) - Method in class org.molgenis.omx.ngs.db.NgsUserJpaMapper

Return EMPTY list of given allocated size

createList(int) - Method in class org.molgenis.omx.ngs.db.PrepKitJpaMapper

Return EMPTY list of given allocated size

createList(int) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistJpaMapper

Return EMPTY list of given allocated size

createList(int) - Method in class org.molgenis.omx.ngs.db.ProjectJpaMapper

Return EMPTY list of given allocated size

createList(int) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolJpaMapper

Return EMPTY list of given allocated size

createList(int) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeJpaMapper

Return EMPTY list of given allocated size

createList(int) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeJpaMapper

Return EMPTY list of given allocated size

createList(int) - Method in class org.molgenis.omx.ngs.db.SampleJpaMapper

Return EMPTY list of given allocated size

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

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

createMachine(MachineController.MachineRequest) - Method in class org.molgenis.controller.MachineController

createMachineFromForm(MachineController.MachineRequest) - Method in class org.molgenis.controller.MachineController

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

createNgsUser(NgsUserController.NgsUserRequest) - Method in class org.molgenis.controller.NgsUserController

createNgsUserFromForm(NgsUserController.NgsUserRequest) - Method in class org.molgenis.controller.NgsUserController

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

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

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

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

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

createPrepKit(PrepKitController.PrepKitRequest) - Method in class org.molgenis.controller.PrepKitController

createPrepKitFromForm(PrepKitController.PrepKitRequest) - Method in class org.molgenis.controller.PrepKitController

createProject(ProjectController.ProjectRequest) - Method in class org.molgenis.controller.ProjectController

createProjectFromForm(ProjectController.ProjectRequest) - Method in class org.molgenis.controller.ProjectController

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

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

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

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

createSample(SampleController.SampleRequest) - Method in class org.molgenis.controller.SampleController

createSampleBarcode(SampleBarcodeController.SampleBarcodeRequest) - Method in class org.molgenis.controller.SampleBarcodeController

createSampleBarcodeFromForm(SampleBarcodeController.SampleBarcodeRequest) - Method in class org.molgenis.controller.SampleBarcodeController

createSampleBarcodeType(SampleBarcodeTypeController.SampleBarcodeTypeRequest) - Method in class org.molgenis.controller.SampleBarcodeTypeController

createSampleBarcodeTypeFromForm(SampleBarcodeTypeController.SampleBarcodeTypeRequest) - Method in class org.molgenis.controller.SampleBarcodeTypeController

createSampleFromForm(SampleController.SampleRequest) - Method in class org.molgenis.controller.SampleController

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

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

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

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

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.ngs.WebAppConfig

DataSetController - Class in org.molgenis.controller

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

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

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

DECLARATIONNR - Static variable in class org.molgenis.omx.ngs.Project

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.CapturingKitService

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.FlowcellLaneService

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

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.MachineService

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.NgsUserService

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.PrepKitService

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

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.SampleBarcodeService

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

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

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.TextValueService

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

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

deleteCapturingKit(Integer) - Method in class org.molgenis.controller.CapturingKitController

deleteCapturingKitPost(Integer) - Method in class org.molgenis.controller.CapturingKitController

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

deleteFlowcell(Integer) - Method in class org.molgenis.controller.FlowcellController

deleteFlowcellLane(Integer) - Method in class org.molgenis.controller.FlowcellLaneController

deleteFlowcellLanePost(Integer) - Method in class org.molgenis.controller.FlowcellLaneController

deleteFlowcellPost(Integer) - Method in class org.molgenis.controller.FlowcellController

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

deleteMachine(Integer) - Method in class org.molgenis.controller.MachineController

deleteMachinePost(Integer) - Method in class org.molgenis.controller.MachineController

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

deleteNgsUser(Integer) - Method in class org.molgenis.controller.NgsUserController

deleteNgsUserPost(Integer) - Method in class org.molgenis.controller.NgsUserController

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

deletePrepKit(Integer) - Method in class org.molgenis.controller.PrepKitController

deletePrepKitPost(Integer) - Method in class org.molgenis.controller.PrepKitController

deleteProject(Integer) - Method in class org.molgenis.controller.ProjectController

deleteProjectPost(Integer) - Method in class org.molgenis.controller.ProjectController

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

deleteSample(Integer) - Method in class org.molgenis.controller.SampleController

deleteSampleBarcode(Integer) - Method in class org.molgenis.controller.SampleBarcodeController

deleteSampleBarcodePost(Integer) - Method in class org.molgenis.controller.SampleBarcodeController

deleteSampleBarcodeType(Integer) - Method in class org.molgenis.controller.SampleBarcodeTypeController

deleteSampleBarcodeTypePost(Integer) - Method in class org.molgenis.controller.SampleBarcodeTypeController

deleteSamplePost(Integer) - Method in class org.molgenis.controller.SampleController

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

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

destroy(CapturingKit) - Method in class org.molgenis.omx.ngs.db.CapturingKitJpaMapper

destroy(Flowcell) - Method in class org.molgenis.omx.ngs.db.FlowcellJpaMapper

destroy(FlowcellLane) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneJpaMapper

destroy(Machine) - Method in class org.molgenis.omx.ngs.db.MachineJpaMapper

destroy(NgsUser) - Method in class org.molgenis.omx.ngs.db.NgsUserJpaMapper

destroy(PrepKit) - Method in class org.molgenis.omx.ngs.db.PrepKitJpaMapper

destroy(Project_ProjectAnalist) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistJpaMapper

destroy(Project) - Method in class org.molgenis.omx.ngs.db.ProjectJpaMapper

destroy(Sample_SampleInPool) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolJpaMapper

destroy(SampleBarcode) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeJpaMapper

destroy(SampleBarcodeType) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeJpaMapper

destroy(Sample) - Method in class org.molgenis.omx.ngs.db.SampleJpaMapper

displayUsage(PrintWriter, Database) - Method in class org.molgenis.ngs.services.DownloadFile

displayUsage(PrintWriter, Database) - Method in class org.molgenis.ngs.services.ViewFile

doUpload(Database, MolgenisFile, File, boolean) - Static method in class org.molgenis.ngs.services.PerformUpload

Generic file upload.

doUpload(Database, boolean, String, String, File, HashMap<String, String>, boolean) - Static method in class org.molgenis.ngs.services.PerformUpload

Generic file upload.

DownloadFile - Class in org.molgenis.ngs.services

DownloadFile(MolgenisContext) - Constructor for class org.molgenis.ngs.services.DownloadFile

E

edit(CapturingKit) - Method in class org.molgenis.omx.ngs.db.CapturingKitJpaMapper

edit(Flowcell) - Method in class org.molgenis.omx.ngs.db.FlowcellJpaMapper

edit(FlowcellLane) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneJpaMapper

edit(Machine) - Method in class org.molgenis.omx.ngs.db.MachineJpaMapper

edit(NgsUser) - Method in class org.molgenis.omx.ngs.db.NgsUserJpaMapper

edit(PrepKit) - Method in class org.molgenis.omx.ngs.db.PrepKitJpaMapper

edit(Project_ProjectAnalist) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistJpaMapper

edit(Project) - Method in class org.molgenis.omx.ngs.db.ProjectJpaMapper

edit(Sample_SampleInPool) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolJpaMapper

edit(SampleBarcode) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeJpaMapper

edit(SampleBarcodeType) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeJpaMapper

edit(Sample) - Method in class org.molgenis.omx.ngs.db.SampleJpaMapper

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

EntitiesImporterImpl - Class in org.molgenis

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

EntitiesValidatorImpl - Class in org.molgenis

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

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

equals(Object) - Method in class org.molgenis.omx.ngs.CapturingKit

equals(Object) - Method in class org.molgenis.omx.ngs.Flowcell

equals(Object) - Method in class org.molgenis.omx.ngs.FlowcellLane

equals(Object) - Method in class org.molgenis.omx.ngs.Machine

equals(Object) - Method in class org.molgenis.omx.ngs.NgsUser

equals(Object) - Method in class org.molgenis.omx.ngs.PrepKit

equals(Object) - Method in class org.molgenis.omx.ngs.Project

equals(Object) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

equals(Object) - Method in class org.molgenis.omx.ngs.Sample

equals(Object) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

equals(Object) - Method in class org.molgenis.omx.ngs.SampleBarcode

equals(Object) - Method in class org.molgenis.omx.ngs.SampleBarcodeType

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 CapturingKit>) - Method in class org.molgenis.omx.ngs.db.CapturingKitJpaMapper

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

executeAdd(List<? extends Flowcell>) - Method in class org.molgenis.omx.ngs.db.FlowcellJpaMapper

executeAdd(List<? extends FlowcellLane>) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneJpaMapper

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

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

executeAdd(List<? extends Machine>) - Method in class org.molgenis.omx.ngs.db.MachineJpaMapper

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

executeAdd(List<? extends NgsUser>) - Method in class org.molgenis.omx.ngs.db.NgsUserJpaMapper

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

executeAdd(List<? extends PrepKit>) - Method in class org.molgenis.omx.ngs.db.PrepKitJpaMapper

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

executeAdd(List<? extends Project_ProjectAnalist>) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistJpaMapper

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

executeAdd(List<? extends Project>) - Method in class org.molgenis.omx.ngs.db.ProjectJpaMapper

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

executeAdd(List<? extends Sample_SampleInPool>) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolJpaMapper

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

executeAdd(List<? extends SampleBarcode>) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeJpaMapper

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

executeAdd(List<? extends SampleBarcodeType>) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeJpaMapper

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

executeAdd(List<? extends Sample>) - Method in class org.molgenis.omx.ngs.db.SampleJpaMapper

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

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 CapturingKit>) - Method in class org.molgenis.omx.ngs.db.CapturingKitJpaMapper

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

executeRemove(List<? extends Flowcell>) - Method in class org.molgenis.omx.ngs.db.FlowcellJpaMapper

executeRemove(List<? extends FlowcellLane>) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneJpaMapper

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

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

executeRemove(List<? extends Machine>) - Method in class org.molgenis.omx.ngs.db.MachineJpaMapper

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

executeRemove(List<? extends NgsUser>) - Method in class org.molgenis.omx.ngs.db.NgsUserJpaMapper

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

executeRemove(List<? extends PrepKit>) - Method in class org.molgenis.omx.ngs.db.PrepKitJpaMapper

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

executeRemove(List<? extends Project_ProjectAnalist>) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistJpaMapper

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

executeRemove(List<? extends Project>) - Method in class org.molgenis.omx.ngs.db.ProjectJpaMapper

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

executeRemove(List<? extends Sample_SampleInPool>) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolJpaMapper

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

executeRemove(List<? extends SampleBarcode>) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeJpaMapper

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

executeRemove(List<? extends SampleBarcodeType>) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeJpaMapper

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

executeRemove(List<? extends Sample>) - Method in class org.molgenis.omx.ngs.db.SampleJpaMapper

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

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 CapturingKit>) - Method in class org.molgenis.omx.ngs.db.CapturingKitJpaMapper

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

executeUpdate(List<? extends Flowcell>) - Method in class org.molgenis.omx.ngs.db.FlowcellJpaMapper

executeUpdate(List<? extends FlowcellLane>) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneJpaMapper

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

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

executeUpdate(List<? extends Machine>) - Method in class org.molgenis.omx.ngs.db.MachineJpaMapper

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

executeUpdate(List<? extends NgsUser>) - Method in class org.molgenis.omx.ngs.db.NgsUserJpaMapper

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

executeUpdate(List<? extends PrepKit>) - Method in class org.molgenis.omx.ngs.db.PrepKitJpaMapper

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

executeUpdate(List<? extends Project_ProjectAnalist>) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistJpaMapper

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

executeUpdate(List<? extends Project>) - Method in class org.molgenis.omx.ngs.db.ProjectJpaMapper

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

executeUpdate(List<? extends Sample_SampleInPool>) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolJpaMapper

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

executeUpdate(List<? extends SampleBarcode>) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeJpaMapper

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

executeUpdate(List<? extends SampleBarcodeType>) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeJpaMapper

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

executeUpdate(List<? extends Sample>) - Method in class org.molgenis.omx.ngs.db.SampleJpaMapper

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

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

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

export CapturingKit to file.

exportCapturingKit(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

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

export Flowcell to file.

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

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

export FlowcellLane to file.

exportFlowcellLane(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

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

export Machine to file.

exportMachine(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

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

export NgsUser to file.

exportNgsUser(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

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

export PrepKit to file.

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

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

export Project to file.

exportProject(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

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

export Sample to file.

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

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

export SampleBarcode to file.

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

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

export SampleBarcodeType to file.

exportSampleBarcodeType(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

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

EXTERNALID - Static variable in class org.molgenis.omx.ngs.Sample

F

fileNameChecks(String) - Static method in class org.molgenis.ngs.services.PerformUpload

fileStore() - Method in class org.molgenis.ngs.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(Database, QueryRule...) - Static method in class org.molgenis.omx.ngs.CapturingKit

Shorthand for db.find(CapturingKit.class, org.molgenis.framework.db.QueryRule ...

find(QueryRule...) - Method in class org.molgenis.omx.ngs.db.CapturingKitSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.ngs.db.CapturingKitSecurityDecorator

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

find(QueryRule...) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneSecurityDecorator

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

find(QueryRule...) - Method in class org.molgenis.omx.ngs.db.FlowcellSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.ngs.db.FlowcellSecurityDecorator

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

find(QueryRule...) - Method in class org.molgenis.omx.ngs.db.MachineSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.ngs.db.MachineSecurityDecorator

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

find(QueryRule...) - Method in class org.molgenis.omx.ngs.db.NgsUserSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.ngs.db.NgsUserSecurityDecorator

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

find(QueryRule...) - Method in class org.molgenis.omx.ngs.db.PrepKitSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.ngs.db.PrepKitSecurityDecorator

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

find(QueryRule...) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistSecurityDecorator

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

find(QueryRule...) - Method in class org.molgenis.omx.ngs.db.ProjectSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.ngs.db.ProjectSecurityDecorator

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

find(QueryRule...) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolSecurityDecorator

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

find(QueryRule...) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeSecurityDecorator

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

find(QueryRule...) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeSecurityDecorator

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

find(QueryRule...) - Method in class org.molgenis.omx.ngs.db.SampleSecurityDecorator

find(TupleWriter, QueryRule...) - Method in class org.molgenis.omx.ngs.db.SampleSecurityDecorator

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

find(Database, QueryRule...) - Static method in class org.molgenis.omx.ngs.Flowcell

Shorthand for db.find(Flowcell.class, org.molgenis.framework.db.QueryRule ...

find(Database, QueryRule...) - Static method in class org.molgenis.omx.ngs.FlowcellLane

Shorthand for db.find(FlowcellLane.class, org.molgenis.framework.db.QueryRule ...

find(Database, QueryRule...) - Static method in class org.molgenis.omx.ngs.Machine

Shorthand for db.find(Machine.class, org.molgenis.framework.db.QueryRule ...

find(Database, QueryRule...) - Static method in class org.molgenis.omx.ngs.NgsUser

Shorthand for db.find(NgsUser.class, org.molgenis.framework.db.QueryRule ...

find(Database, QueryRule...) - Static method in class org.molgenis.omx.ngs.PrepKit

Shorthand for db.find(PrepKit.class, org.molgenis.framework.db.QueryRule ...

find(Database, QueryRule...) - Static method in class org.molgenis.omx.ngs.Project

Shorthand for db.find(Project.class, org.molgenis.framework.db.QueryRule ...

find(Database, QueryRule...) - Static method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Shorthand for db.find(Project_ProjectAnalist.class, org.molgenis.framework.db.QueryRule ...

find(Database, QueryRule...) - Static method in class org.molgenis.omx.ngs.Sample

Shorthand for db.find(Sample.class, org.molgenis.framework.db.QueryRule ...

find(Database, QueryRule...) - Static method in class org.molgenis.omx.ngs.Sample_SampleInPool

Shorthand for db.find(Sample_SampleInPool.class, org.molgenis.framework.db.QueryRule ...

find(Database, QueryRule...) - Static method in class org.molgenis.omx.ngs.SampleBarcode

Shorthand for db.find(SampleBarcode.class, org.molgenis.framework.db.QueryRule ...

find(Database, QueryRule...) - Static method in class org.molgenis.omx.ngs.SampleBarcodeType

Shorthand for db.find(SampleBarcodeType.class, org.molgenis.framework.db.QueryRule ...

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

findByAutoid(Database, Integer) - Static method in class org.molgenis.omx.ngs.Project_ProjectAnalist

findByAutoid(Database, Integer) - Static method in class org.molgenis.omx.ngs.Sample_SampleInPool

findByCapturingKitName(Database, String) - Static method in class org.molgenis.omx.ngs.CapturingKit

findByFlowcellLaneSample(Database, Integer, String, Integer) - Static method in class org.molgenis.omx.ngs.FlowcellLane

findByFlowcellName(Database, String) - Static method in class org.molgenis.omx.ngs.Flowcell

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(Database, Integer) - Static method in class org.molgenis.omx.ngs.CapturingKit

findById(Object) - Method in class org.molgenis.omx.ngs.db.CapturingKitSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.ngs.db.FlowcellSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.ngs.db.MachineSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.ngs.db.NgsUserSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.ngs.db.PrepKitSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.ngs.db.ProjectSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeSecurityDecorator

findById(Object) - Method in class org.molgenis.omx.ngs.db.SampleSecurityDecorator

findById(Database, Integer) - Static method in class org.molgenis.omx.ngs.Flowcell

findById(Database, Integer) - Static method in class org.molgenis.omx.ngs.FlowcellLane

findById(Database, Integer) - Static method in class org.molgenis.omx.ngs.Machine

findById(Database, Integer) - Static method in class org.molgenis.omx.ngs.NgsUser

findById(Database, Integer) - Static method in class org.molgenis.omx.ngs.PrepKit

findById(Database, Integer) - Static method in class org.molgenis.omx.ngs.Project

findById(Database, Integer) - Static method in class org.molgenis.omx.ngs.Sample

findById(Database, Integer) - Static method in class org.molgenis.omx.ngs.SampleBarcode

findById(Database, Integer) - Static method in class org.molgenis.omx.ngs.SampleBarcodeType

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

findByInternalId(Database, String) - Static method in class org.molgenis.omx.ngs.Sample

findByMachineName(Database, String) - Static method in class org.molgenis.omx.ngs.Machine

findByPrepKitName(Database, String) - Static method in class org.molgenis.omx.ngs.PrepKit

findByProjectAnalistProject(Database, Integer, Integer) - Static method in class org.molgenis.omx.ngs.Project_ProjectAnalist

findByProjectName(Database, String) - Static method in class org.molgenis.omx.ngs.Project

findBySampleBarcodeName(Database, String) - Static method in class org.molgenis.omx.ngs.SampleBarcode

findBySampleBarcodeTypeName(Database, String) - Static method in class org.molgenis.omx.ngs.SampleBarcodeType

findBySampleBarcodeTypeSampleBarcodeNrSampleBarcodeSequence(Database, Integer, String, String) - Static method in class org.molgenis.omx.ngs.SampleBarcode

findBySampleInPoolSample(Database, Integer, Integer) - Static method in class org.molgenis.omx.ngs.Sample_SampleInPool

findByUserName(Database, String) - Static method in class org.molgenis.omx.ngs.NgsUser

Flowcell - Class in org.molgenis.omx.ngs

Flowcell: .

Flowcell() - Constructor for class org.molgenis.omx.ngs.Flowcell

Flowcell(Flowcell) - Constructor for class org.molgenis.omx.ngs.Flowcell

copy constructor

FLOWCELL - Static variable in class org.molgenis.omx.ngs.FlowcellLane

FLOWCELL_FLOWCELLNAME - Static variable in class org.molgenis.omx.ngs.FlowcellLane

FlowcellController - Class in org.molgenis.controller

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

FlowcellDecorator<E extends Flowcell> - Class in org.molgenis.ngs.decorators

Generic decorator for NGS Flowcell values.

FlowcellDecorator(Mapper<E>) - Constructor for class org.molgenis.ngs.decorators.FlowcellDecorator

FLOWCELLDIRECTION - Static variable in class org.molgenis.omx.ngs.Flowcell

FlowcellEntityImporter - Class in org.molgenis.omx.ngs.db

Reads Flowcell from a delimited (csv) file, resolving xrefs to ids where needed, that is the tricky bit ;-)

FlowcellEntityImporter() - Constructor for class org.molgenis.omx.ngs.db.FlowcellEntityImporter

FlowcellForm - Class in org.molgenis.omx.ngs.ui

A HtmlForm that is preloaded with all inputs for entity Flowcell

FlowcellForm() - Constructor for class org.molgenis.omx.ngs.ui.FlowcellForm

FlowcellForm(Flowcell) - Constructor for class org.molgenis.omx.ngs.ui.FlowcellForm

FlowcellJpaMapper - Class in org.molgenis.omx.ngs.db

FlowcellJpaMapper(Database) - Constructor for class org.molgenis.omx.ngs.db.FlowcellJpaMapper

FlowcellLane - Class in org.molgenis.omx.ngs

FlowcellLane: A FlowcellLaneSampleBarcode bundles information about a sample which is added to a lane on a flowcell..

FlowcellLane() - Constructor for class org.molgenis.omx.ngs.FlowcellLane

FlowcellLane(FlowcellLane) - Constructor for class org.molgenis.omx.ngs.FlowcellLane

copy constructor

FLOWCELLLANECOMMENT - Static variable in class org.molgenis.omx.ngs.FlowcellLane

FlowcellLaneController - Class in org.molgenis.controller

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

FlowcellLaneEntityImporter - Class in org.molgenis.omx.ngs.db

Reads FlowcellLane from a delimited (csv) file, resolving xrefs to ids where needed, that is the tricky bit ;-)

FlowcellLaneEntityImporter() - Constructor for class org.molgenis.omx.ngs.db.FlowcellLaneEntityImporter

FlowcellLaneForm - Class in org.molgenis.omx.ngs.ui

A HtmlForm that is preloaded with all inputs for entity FlowcellLane

FlowcellLaneForm() - Constructor for class org.molgenis.omx.ngs.ui.FlowcellLaneForm

FlowcellLaneForm(FlowcellLane) - Constructor for class org.molgenis.omx.ngs.ui.FlowcellLaneForm

FlowcellLaneJpaMapper - Class in org.molgenis.omx.ngs.db

FlowcellLaneJpaMapper(Database) - Constructor for class org.molgenis.omx.ngs.db.FlowcellLaneJpaMapper

FlowcellLaneSecurityDecorator<E extends FlowcellLane> - Class in org.molgenis.omx.ngs.db

TODO add column level security filters

FlowcellLaneSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.ngs.db.FlowcellLaneSecurityDecorator

FlowcellLaneService - Class in org.molgenis.service

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

FlowcellLanesFormController - Class in org.molgenis.ui

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

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

FLOWCELLNAME - Static variable in class org.molgenis.omx.ngs.Flowcell

FlowcellRunsFormController - Class in org.molgenis.ui

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

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

FlowcellSecurityDecorator<E extends Flowcell> - Class in org.molgenis.omx.ngs.db

TODO add column level security filters

FlowcellSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.ngs.db.FlowcellSecurityDecorator

FlowcellService - Class in org.molgenis.service

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

FlowcellsFormController - Class in org.molgenis.ui

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

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

freeMarkerConfigurer() - Method in class org.molgenis.ngs.WebAppConfig

Configure freemarker.

FrontController - Class in org.molgenis.servlet

FrontController() - Constructor for class org.molgenis.servlet.FrontController

G

GCCANALYSIS - Static variable in class org.molgenis.omx.ngs.Project

GCCINSTRUCTIONS - Static variable in class org.molgenis.omx.ngs.Project

get(String) - Method in class org.molgenis.omx.ngs.CapturingKit

Generic getter.

get(String) - Method in class org.molgenis.omx.ngs.Flowcell

Generic getter.

get(String) - Method in class org.molgenis.omx.ngs.FlowcellLane

Generic getter.

get(String) - Method in class org.molgenis.omx.ngs.Machine

Generic getter.

get(String) - Method in class org.molgenis.omx.ngs.NgsUser

Generic getter.

get(String) - Method in class org.molgenis.omx.ngs.PrepKit

Generic getter.

get(String) - Method in class org.molgenis.omx.ngs.Project

Generic getter.

get(String) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Generic getter.

get(String) - Method in class org.molgenis.omx.ngs.Sample

Generic getter.

get(String) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

Generic getter.

get(String) - Method in class org.molgenis.omx.ngs.SampleBarcode

Generic getter.

get(String) - Method in class org.molgenis.omx.ngs.SampleBarcodeType

Generic getter.

getArrayFile() - Method in class org.molgenis.omx.ngs.Sample

Get the Location of arrayfile for the sample in this lane-barcode.

getArrayFile(Database) - Method in class org.molgenis.omx.ngs.Sample

Deprecated.

getArrayId() - Method in class org.molgenis.omx.ngs.Sample

Get the ID of the sample on the arrayFile.

getArrayId(Database) - Method in class org.molgenis.omx.ngs.Sample

Deprecated.

getAutoid() - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Get the automatic id field to ensure ordering of mrefs.

getAutoid() - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

Get the automatic id field to ensure ordering of mrefs.

getCapturingKit() - Method in class org.molgenis.omx.ngs.Sample

Get the Capturing kit used..

getCapturingKit(Database) - Method in class org.molgenis.omx.ngs.Sample

Deprecated.

getCapturingKit_CapturingKitName() - Method in class org.molgenis.omx.ngs.Sample

Get a pretty label CapturingKitName for cross reference CapturingKit to CapturingKit.Id.

getCapturingKit_Id() - Method in class org.molgenis.omx.ngs.Sample

getCapturingKitName() - Method in class org.molgenis.omx.ngs.CapturingKit

Get the The name of a capturing kit.

getCapturingKitName(Database) - Method in class org.molgenis.omx.ngs.CapturingKit

Deprecated.

getContext() - Method in class org.molgenis.servlet.MolgenisContextListener

getCustomHtmlHeaders() - Method in class org.molgenis.ngs.plugins.header.Header

getCustomHtmlHeaders() - Method in class org.molgenis.ngs.plugins.worksheet.Worksheet

getDeclarationNr() - Method in class org.molgenis.omx.ngs.Project

Get the The Declaration Nr of a project..

getDeclarationNr(Database) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getEntity() - Method in class org.molgenis.service.AccessionService

getEntity() - Method in class org.molgenis.service.BoolValueService

getEntity() - Method in class org.molgenis.service.CapturingKitService

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.FlowcellLaneService

getEntity() - Method in class org.molgenis.service.FlowcellService

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.MachineService

getEntity() - Method in class org.molgenis.service.MolgenisFileService

getEntity() - Method in class org.molgenis.service.MrefValueService

getEntity() - Method in class org.molgenis.service.NgsUserService

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.PrepKitService

getEntity() - Method in class org.molgenis.service.ProjectService

getEntity() - Method in class org.molgenis.service.ProtocolService

getEntity() - Method in class org.molgenis.service.RuntimePropertyService

getEntity() - Method in class org.molgenis.service.SampleBarcodeService

getEntity() - Method in class org.molgenis.service.SampleBarcodeTypeService

getEntity() - Method in class org.molgenis.service.SampleService

getEntity() - Method in class org.molgenis.service.SpeciesService

getEntity() - Method in class org.molgenis.service.StringValueService

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.omx.ngs.ui.CapturingKitForm

getEntityClass() - Method in class org.molgenis.omx.ngs.ui.FlowcellForm

getEntityClass() - Method in class org.molgenis.omx.ngs.ui.FlowcellLaneForm

getEntityClass() - Method in class org.molgenis.omx.ngs.ui.MachineForm

getEntityClass() - Method in class org.molgenis.omx.ngs.ui.NgsUserForm

getEntityClass() - Method in class org.molgenis.omx.ngs.ui.PrepKitForm

getEntityClass() - Method in class org.molgenis.omx.ngs.ui.Project_ProjectAnalistForm

getEntityClass() - Method in class org.molgenis.omx.ngs.ui.ProjectForm

getEntityClass() - Method in class org.molgenis.omx.ngs.ui.Sample_SampleInPoolForm

getEntityClass() - Method in class org.molgenis.omx.ngs.ui.SampleBarcodeForm

getEntityClass() - Method in class org.molgenis.omx.ngs.ui.SampleBarcodeTypeForm

getEntityClass() - Method in class org.molgenis.omx.ngs.ui.SampleForm

getEntityClass() - Method in class org.molgenis.ui.CapturingKitsFormController

getEntityClass() - Method in class org.molgenis.ui.FlowcellLanesFormController

getEntityClass() - Method in class org.molgenis.ui.FlowcellRunsFormController

getEntityClass() - Method in class org.molgenis.ui.FlowcellsFormController

getEntityClass() - Method in class org.molgenis.ui.PrepKitsFormController

getEntityClass() - Method in class org.molgenis.ui.ProjectsFormController

getEntityClass() - Method in class org.molgenis.ui.SampleBarcodesFormController

getEntityClass() - Method in class org.molgenis.ui.SampleBarcodeTypesFormController

getEntityClass() - Method in class org.molgenis.ui.Samples1FormController

getEntityClass() - Method in class org.molgenis.ui.Samples2FormController

getEntityClass() - Method in class org.molgenis.ui.SequencersFormController

getEntityClass() - Method in class org.molgenis.ui.UsersFormController

getExternalId() - Method in class org.molgenis.omx.ngs.Sample

Get the The name of a sample as known by the customer.

getExternalId(Database) - Method in class org.molgenis.omx.ngs.Sample

Deprecated.

getField(String) - Method in class org.molgenis.ui.CapturingKitsFormController

getField(String) - Method in class org.molgenis.ui.FlowcellLanesFormController

getField(String) - Method in class org.molgenis.ui.FlowcellRunsFormController

getField(String) - Method in class org.molgenis.ui.FlowcellsFormController

getField(String) - Method in class org.molgenis.ui.PrepKitsFormController

getField(String) - Method in class org.molgenis.ui.ProjectsFormController

getField(String) - Method in class org.molgenis.ui.SampleBarcodesFormController

getField(String) - Method in class org.molgenis.ui.SampleBarcodeTypesFormController

getField(String) - Method in class org.molgenis.ui.Samples1FormController

getField(String) - Method in class org.molgenis.ui.Samples2FormController

getField(String) - Method in class org.molgenis.ui.SequencersFormController

getField(String) - Method in class org.molgenis.ui.UsersFormController

getFields(boolean) - Method in class org.molgenis.omx.ngs.CapturingKit

Get the names of all public properties of CapturingKit.

getFields() - Method in class org.molgenis.omx.ngs.CapturingKit

getFields(String) - Method in class org.molgenis.omx.ngs.CapturingKit

Deprecated.

getFields(boolean) - Method in class org.molgenis.omx.ngs.Flowcell

Get the names of all public properties of Flowcell.

getFields() - Method in class org.molgenis.omx.ngs.Flowcell

getFields(String) - Method in class org.molgenis.omx.ngs.Flowcell

Deprecated.

getFields(boolean) - Method in class org.molgenis.omx.ngs.FlowcellLane

Get the names of all public properties of FlowcellLane.

getFields() - Method in class org.molgenis.omx.ngs.FlowcellLane

getFields(String) - Method in class org.molgenis.omx.ngs.FlowcellLane

Deprecated.

getFields(boolean) - Method in class org.molgenis.omx.ngs.Machine

Get the names of all public properties of Machine.

getFields() - Method in class org.molgenis.omx.ngs.Machine

getFields(String) - Method in class org.molgenis.omx.ngs.Machine

Deprecated.

getFields(boolean) - Method in class org.molgenis.omx.ngs.NgsUser

Get the names of all public properties of NgsUser.

getFields() - Method in class org.molgenis.omx.ngs.NgsUser

getFields(String) - Method in class org.molgenis.omx.ngs.NgsUser

Deprecated.

getFields(boolean) - Method in class org.molgenis.omx.ngs.PrepKit

Get the names of all public properties of PrepKit.

getFields() - Method in class org.molgenis.omx.ngs.PrepKit

getFields(String) - Method in class org.molgenis.omx.ngs.PrepKit

Deprecated.

getFields(boolean) - Method in class org.molgenis.omx.ngs.Project

Get the names of all public properties of Project.

getFields() - Method in class org.molgenis.omx.ngs.Project

getFields(String) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getFields(boolean) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Get the names of all public properties of Project_ProjectAnalist.

getFields() - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

getFields(String) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Deprecated.

getFields(boolean) - Method in class org.molgenis.omx.ngs.Sample

Get the names of all public properties of Sample.

getFields() - Method in class org.molgenis.omx.ngs.Sample

getFields(String) - Method in class org.molgenis.omx.ngs.Sample

Deprecated.

getFields(boolean) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

Get the names of all public properties of Sample_SampleInPool.

getFields() - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

getFields(String) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

Deprecated.

getFields(boolean) - Method in class org.molgenis.omx.ngs.SampleBarcode

Get the names of all public properties of SampleBarcode.

getFields() - Method in class org.molgenis.omx.ngs.SampleBarcode

getFields(String) - Method in class org.molgenis.omx.ngs.SampleBarcode

Deprecated.

getFields(boolean) - Method in class org.molgenis.omx.ngs.SampleBarcodeType

Get the names of all public properties of SampleBarcodeType.

getFields() - Method in class org.molgenis.omx.ngs.SampleBarcodeType

getFields(String) - Method in class org.molgenis.omx.ngs.SampleBarcodeType

Deprecated.

getFieldType(String) - Method in class org.molgenis.omx.ngs.db.CapturingKitJpaMapper

getFieldType(String) - Method in class org.molgenis.omx.ngs.db.FlowcellJpaMapper

getFieldType(String) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneJpaMapper

getFieldType(String) - Method in class org.molgenis.omx.ngs.db.MachineJpaMapper

getFieldType(String) - Method in class org.molgenis.omx.ngs.db.NgsUserJpaMapper

getFieldType(String) - Method in class org.molgenis.omx.ngs.db.PrepKitJpaMapper

getFieldType(String) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistJpaMapper

getFieldType(String) - Method in class org.molgenis.omx.ngs.db.ProjectJpaMapper

getFieldType(String) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolJpaMapper

getFieldType(String) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeJpaMapper

getFieldType(String) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeJpaMapper

getFieldType(String) - Method in class org.molgenis.omx.ngs.db.SampleJpaMapper

getFlowcell() - Method in class org.molgenis.omx.ngs.FlowcellLane

Get the The flowcell to which this lane belongs.

getFlowcell(Database) - Method in class org.molgenis.omx.ngs.FlowcellLane

Deprecated.

getFlowcell_FlowcellName() - Method in class org.molgenis.omx.ngs.FlowcellLane

Get a pretty label FlowcellName for cross reference Flowcell to Flowcell.Id.

getFlowcell_Id() - Method in class org.molgenis.omx.ngs.FlowcellLane

getFlowcellDirection() - Method in class org.molgenis.omx.ngs.Flowcell

Get the The direction used to read sequences.

getFlowcellDirection(Database) - Method in class org.molgenis.omx.ngs.Flowcell

Deprecated.

getFlowcellDirectionLabel() - Method in class org.molgenis.omx.ngs.Flowcell

Get tha label for enum FlowcellDirection.

getFlowcellDirectionOptions() - Method in class org.molgenis.omx.ngs.Flowcell

FlowcellDirection is enum.

getFlowcellLaneComment() - Method in class org.molgenis.omx.ngs.FlowcellLane

Get the Comment about the experiment..

getFlowcellLaneComment(Database) - Method in class org.molgenis.omx.ngs.FlowcellLane

Deprecated.

getFlowcellName() - Method in class org.molgenis.omx.ngs.Flowcell

Get the The unique name of a flowcell.

getFlowcellName(Database) - Method in class org.molgenis.omx.ngs.Flowcell

Deprecated.

getGccAnalysis() - Method in class org.molgenis.omx.ngs.Project

Get the Indication if variant calling has to be performed on the experiment..

getGccAnalysis(Database) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getGccInstructions() - Method in class org.molgenis.omx.ngs.Project

Get the Specific instructions for GCC members for the analysis..

getGccInstructions(Database) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getHeaders() - Method in class org.molgenis.omx.ngs.ui.CapturingKitForm

getHeaders() - Method in class org.molgenis.omx.ngs.ui.FlowcellForm

getHeaders() - Method in class org.molgenis.omx.ngs.ui.FlowcellLaneForm

getHeaders() - Method in class org.molgenis.omx.ngs.ui.MachineForm

getHeaders() - Method in class org.molgenis.omx.ngs.ui.NgsUserForm

getHeaders() - Method in class org.molgenis.omx.ngs.ui.PrepKitForm

getHeaders() - Method in class org.molgenis.omx.ngs.ui.Project_ProjectAnalistForm

getHeaders() - Method in class org.molgenis.omx.ngs.ui.ProjectForm

getHeaders() - Method in class org.molgenis.omx.ngs.ui.Sample_SampleInPoolForm

getHeaders() - Method in class org.molgenis.omx.ngs.ui.SampleBarcodeForm

getHeaders() - Method in class org.molgenis.omx.ngs.ui.SampleBarcodeTypeForm

getHeaders() - Method in class org.molgenis.omx.ngs.ui.SampleForm

getHeaders() - Method in class org.molgenis.ui.CapturingKitsFormController

getHeaders() - Method in class org.molgenis.ui.FlowcellLanesFormController

getHeaders() - Method in class org.molgenis.ui.FlowcellRunsFormController

getHeaders() - Method in class org.molgenis.ui.FlowcellsFormController

getHeaders() - Method in class org.molgenis.ui.PrepKitsFormController

getHeaders() - Method in class org.molgenis.ui.ProjectsFormController

getHeaders() - Method in class org.molgenis.ui.SampleBarcodesFormController

getHeaders() - Method in class org.molgenis.ui.SampleBarcodeTypesFormController

getHeaders() - Method in class org.molgenis.ui.Samples1FormController

getHeaders() - Method in class org.molgenis.ui.Samples2FormController

getHeaders() - Method in class org.molgenis.ui.SequencersFormController

getHeaders() - Method in class org.molgenis.ui.UsersFormController

getHomeHtml() - Method in class org.molgenis.ngs.plugins.home.Home.HomeModel

getHrefLogo() - Method in class org.molgenis.ngs.plugins.header.Header.HeaderModel

getId() - Method in class org.molgenis.omx.ngs.CapturingKit

Get the automatically generated internal id, only for internal use..

getId() - Method in class org.molgenis.omx.ngs.Flowcell

Get the automatically generated internal id, only for internal use..

getId() - Method in class org.molgenis.omx.ngs.FlowcellLane

Get the automatically generated internal id, only for internal use..

getId() - Method in class org.molgenis.omx.ngs.Machine

Get the automatically generated internal id, only for internal use..

getId() - Method in class org.molgenis.omx.ngs.NgsUser

Get the automatically generated internal id, only for internal use..

getId() - Method in class org.molgenis.omx.ngs.PrepKit

Get the automatically generated internal id, only for internal use..

getId() - Method in class org.molgenis.omx.ngs.Project

Get the automatically generated internal id, only for internal use..

getId() - Method in class org.molgenis.omx.ngs.Sample

Get the automatically generated internal id, only for internal use..

getId() - Method in class org.molgenis.omx.ngs.SampleBarcode

Get the automatically generated internal id, only for internal use..

getId() - Method in class org.molgenis.omx.ngs.SampleBarcodeType

Get the automatically generated internal id, only for internal use..

getIdField() - Method in class org.molgenis.omx.ngs.CapturingKit

getIdField() - Method in class org.molgenis.omx.ngs.Flowcell

getIdField() - Method in class org.molgenis.omx.ngs.FlowcellLane

getIdField() - Method in class org.molgenis.omx.ngs.Machine

getIdField() - Method in class org.molgenis.omx.ngs.NgsUser

getIdField() - Method in class org.molgenis.omx.ngs.PrepKit

getIdField() - Method in class org.molgenis.omx.ngs.Project

getIdField() - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

getIdField() - Method in class org.molgenis.omx.ngs.Sample

getIdField() - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

getIdField() - Method in class org.molgenis.omx.ngs.SampleBarcode

getIdField() - Method in class org.molgenis.omx.ngs.SampleBarcodeType

getIdValue() - Method in class org.molgenis.omx.ngs.CapturingKit

getIdValue() - Method in class org.molgenis.omx.ngs.Flowcell

getIdValue() - Method in class org.molgenis.omx.ngs.FlowcellLane

getIdValue() - Method in class org.molgenis.omx.ngs.Machine

getIdValue() - Method in class org.molgenis.omx.ngs.NgsUser

getIdValue() - Method in class org.molgenis.omx.ngs.PrepKit

getIdValue() - Method in class org.molgenis.omx.ngs.Project

getIdValue() - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

getIdValue() - Method in class org.molgenis.omx.ngs.Sample

getIdValue() - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

getIdValue() - Method in class org.molgenis.omx.ngs.SampleBarcode

getIdValue() - Method in class org.molgenis.omx.ngs.SampleBarcodeType

getInputs() - Method in class org.molgenis.omx.ngs.ui.CapturingKitForm

getInputs() - Method in class org.molgenis.omx.ngs.ui.FlowcellForm

getInputs() - Method in class org.molgenis.omx.ngs.ui.FlowcellLaneForm

getInputs() - Method in class org.molgenis.omx.ngs.ui.MachineForm

getInputs() - Method in class org.molgenis.omx.ngs.ui.NgsUserForm

getInputs() - Method in class org.molgenis.omx.ngs.ui.PrepKitForm

getInputs() - Method in class org.molgenis.omx.ngs.ui.Project_ProjectAnalistForm

getInputs() - Method in class org.molgenis.omx.ngs.ui.ProjectForm

getInputs() - Method in class org.molgenis.omx.ngs.ui.Sample_SampleInPoolForm

getInputs() - Method in class org.molgenis.omx.ngs.ui.SampleBarcodeForm

getInputs() - Method in class org.molgenis.omx.ngs.ui.SampleBarcodeTypeForm

getInputs() - Method in class org.molgenis.omx.ngs.ui.SampleForm

getInputs(CapturingKit, boolean) - Method in class org.molgenis.ui.CapturingKitsFormController

getInputs(FlowcellLane, boolean) - Method in class org.molgenis.ui.FlowcellLanesFormController

getInputs(Flowcell, boolean) - Method in class org.molgenis.ui.FlowcellRunsFormController

getInputs(Flowcell, boolean) - Method in class org.molgenis.ui.FlowcellsFormController

getInputs(PrepKit, boolean) - Method in class org.molgenis.ui.PrepKitsFormController

getInputs(Project, boolean) - Method in class org.molgenis.ui.ProjectsFormController

getInputs(SampleBarcode, boolean) - Method in class org.molgenis.ui.SampleBarcodesFormController

getInputs(SampleBarcodeType, boolean) - Method in class org.molgenis.ui.SampleBarcodeTypesFormController

getInputs(Sample, boolean) - Method in class org.molgenis.ui.Samples1FormController

getInputs(Sample, boolean) - Method in class org.molgenis.ui.Samples2FormController

getInputs(Machine, boolean) - Method in class org.molgenis.ui.SequencersFormController

getInputs(NgsUser, boolean) - Method in class org.molgenis.ui.UsersFormController

getInstance() - Static method in class org.molgenis.servlet.MolgenisContextListener

getInternalId() - Method in class org.molgenis.omx.ngs.Sample

Get the The number of a sample as used in-house.

getInternalId(Database) - Method in class org.molgenis.omx.ngs.Sample

Deprecated.

getLabelFields() - Method in class org.molgenis.omx.ngs.CapturingKit

getLabelFields() - Method in class org.molgenis.omx.ngs.Flowcell

getLabelFields() - Method in class org.molgenis.omx.ngs.FlowcellLane

getLabelFields() - Method in class org.molgenis.omx.ngs.Machine

getLabelFields() - Method in class org.molgenis.omx.ngs.NgsUser

getLabelFields() - Method in class org.molgenis.omx.ngs.PrepKit

getLabelFields() - Method in class org.molgenis.omx.ngs.Project

getLabelFields() - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

getLabelFields() - Method in class org.molgenis.omx.ngs.Sample

getLabelFields() - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

getLabelFields() - Method in class org.molgenis.omx.ngs.SampleBarcode

getLabelFields() - Method in class org.molgenis.omx.ngs.SampleBarcodeType

getLabStatus() - Method in class org.molgenis.omx.ngs.Sample

Get the Lab status phase of this sample.

getLabStatus(Database) - Method in class org.molgenis.omx.ngs.Sample

Deprecated.

getLabStatusLabel() - Method in class org.molgenis.omx.ngs.Sample

Get tha label for enum LabStatus.

getLabStatusOptions() - Method in class org.molgenis.omx.ngs.Sample

LabStatus is enum.

getLane() - Method in class org.molgenis.omx.ngs.FlowcellLane

Get the The lane number that is unique within a flow cell with a range of 1-8..

getLane(Database) - Method in class org.molgenis.omx.ngs.FlowcellLane

Deprecated.

getLaneAmount() - Method in class org.molgenis.omx.ngs.Project

Get the Number of lanes planned in this project.

getLaneAmount(Database) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getLaneLabel() - Method in class org.molgenis.omx.ngs.FlowcellLane

Get tha label for enum Lane.

getLaneOptions() - Method in class org.molgenis.omx.ngs.FlowcellLane

Lane is enum.

getMachine() - Method in class org.molgenis.omx.ngs.Flowcell

Get the The machine used for sequencing.

getMachine(Database) - Method in class org.molgenis.omx.ngs.Flowcell

Deprecated.

getMachine_Id() - Method in class org.molgenis.omx.ngs.Flowcell

getMachine_MachineName() - Method in class org.molgenis.omx.ngs.Flowcell

Get a pretty label MachineName for cross reference Machine to Machine.Id.

getMachineName() - Method in class org.molgenis.omx.ngs.Machine

Get the The name of a sequence machine.

getMachineName(Database) - Method in class org.molgenis.omx.ngs.Machine

Deprecated.

getMyModel() - Method in class org.molgenis.ngs.plugins.header.Header

getMyModel() - Method in class org.molgenis.ngs.plugins.home.Home

getMyModel() - Method in class org.molgenis.ngs.plugins.worksheet.Worksheet

getNeededExtraFields(String, Database) - Static method in class org.molgenis.ngs.services.PerformUpload

Reusable function that will return a list of fieldnames that are needed for this subclass of 'MolgenisFile'.

getPrepKit() - Method in class org.molgenis.omx.ngs.Project

Get the Preparation kit used on the sample for this experiment.

getPrepKit(Database) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getPrepKit_Id() - Method in class org.molgenis.omx.ngs.Project

getPrepKit_PrepKitName() - Method in class org.molgenis.omx.ngs.Project

Get a pretty label PrepKitName for cross reference PrepKit to PrepKit.Id.

getPrepKitName() - Method in class org.molgenis.omx.ngs.PrepKit

Get the The name of a prep kit.

getPrepKitName(Database) - Method in class org.molgenis.omx.ngs.PrepKit

Deprecated.

getProject() - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Get the .

getProject(Database) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Deprecated.

getProject_Id() - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

getProject_ProjectName() - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Get a pretty label ProjectName for cross reference Project to Project.Id.

getProjectAnalist() - Method in class org.molgenis.omx.ngs.Project

Get the The user which will be responsible for performing the wet-lab activities..

getProjectAnalist(Database) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getProjectAnalist() - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Get the .

getProjectAnalist(Database) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Deprecated.

getProjectAnalist_Id() - Method in class org.molgenis.omx.ngs.Project

getProjectAnalist_Id() - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

getProjectAnalist_UserName() - Method in class org.molgenis.omx.ngs.Project

Get a pretty label for cross reference ProjectAnalist to NgsUser.Id.

getProjectAnalist_UserName() - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Get a pretty label UserName for cross reference ProjectAnalist to NgsUser.Id.

getProjectAnalistProjectCollection() - Method in class org.molgenis.omx.ngs.NgsUser

getProjectAnalistProjectCollection(Database) - Method in class org.molgenis.omx.ngs.NgsUser

getProjectComment() - Method in class org.molgenis.omx.ngs.Project

Get the The comment of a project..

getProjectComment(Database) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getProjectCustomer() - Method in class org.molgenis.omx.ngs.Project

Get the The user who ordered the project..

getProjectCustomer(Database) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getProjectCustomer_Id() - Method in class org.molgenis.omx.ngs.Project

getProjectCustomer_UserName() - Method in class org.molgenis.omx.ngs.Project

Get a pretty label UserName for cross reference ProjectCustomer to NgsUser.Id.

getProjectId() - Method in class org.molgenis.omx.ngs.Sample

Get the the sample that this sample is part of.

getProjectId(Database) - Method in class org.molgenis.omx.ngs.Sample

Deprecated.

getProjectId_Id() - Method in class org.molgenis.omx.ngs.Sample

getProjectId_ProjectName() - Method in class org.molgenis.omx.ngs.Sample

Get a pretty label ProjectName for cross reference ProjectId to Project.Id.

getProjectName() - Method in class org.molgenis.omx.ngs.Project

Get the The name of a project.

getProjectName(Database) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getProjectPlannedFinishDate() - Method in class org.molgenis.omx.ngs.Project

Get the The date a project is expected to be finished.

getProjectPlannedFinishDate(Database) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getQcDryDate() - Method in class org.molgenis.omx.ngs.FlowcellLane

Get the The date the QcWetUser selected the QcWetMet value.

getQcDryDate(Database) - Method in class org.molgenis.omx.ngs.FlowcellLane

Deprecated.

getQcDryMet() - Method in class org.molgenis.omx.ngs.FlowcellLane

Get the Variant calling quality criteria.

getQcDryMet(Database) - Method in class org.molgenis.omx.ngs.FlowcellLane

Deprecated.

getQcDryMetLabel() - Method in class org.molgenis.omx.ngs.FlowcellLane

Get tha label for enum QcDryMet.

getQcDryMetOptions() - Method in class org.molgenis.omx.ngs.FlowcellLane

QcDryMet is enum.

getQcDryUser() - Method in class org.molgenis.omx.ngs.FlowcellLane

Get the The user who checked if the quality score of the analysis was met.

getQcDryUser(Database) - Method in class org.molgenis.omx.ngs.FlowcellLane

Deprecated.

getQcDryUser_Id() - Method in class org.molgenis.omx.ngs.FlowcellLane

getQcDryUser_UserName() - Method in class org.molgenis.omx.ngs.FlowcellLane

Get a pretty label UserName for cross reference QcDryUser to NgsUser.Id.

getQcWetDate() - Method in class org.molgenis.omx.ngs.FlowcellLane

Get the The date the QcWetUser selected the QcWetMet value..

getQcWetDate(Database) - Method in class org.molgenis.omx.ngs.FlowcellLane

Deprecated.

getQcWetMet() - Method in class org.molgenis.omx.ngs.FlowcellLane

Get the Quality criteria of the wet lab met.

getQcWetMet(Database) - Method in class org.molgenis.omx.ngs.FlowcellLane

Deprecated.

getQcWetMetLabel() - Method in class org.molgenis.omx.ngs.FlowcellLane

Get tha label for enum QcWetMet.

getQcWetMetOptions() - Method in class org.molgenis.omx.ngs.FlowcellLane

QcWetMet is enum.

getQcWetUser() - Method in class org.molgenis.omx.ngs.FlowcellLane

Get the The user who checked if the quality score on the wet-lab was met.

getQcWetUser(Database) - Method in class org.molgenis.omx.ngs.FlowcellLane

Deprecated.

getQcWetUser_Id() - Method in class org.molgenis.omx.ngs.FlowcellLane

getQcWetUser_UserName() - Method in class org.molgenis.omx.ngs.FlowcellLane

Get a pretty label UserName for cross reference QcWetUser to NgsUser.Id.

getResultFilesDir() - Method in class org.molgenis.omx.ngs.Project

Get the File location of the resulting files after analysis occurred (for file download purpose).

getResultFilesDir(Database) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getResultShippedDate() - Method in class org.molgenis.omx.ngs.Project

Get the The date the result of the experiment is shipped to the custumor..

getResultShippedDate(Database) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getResultShippedTo() - Method in class org.molgenis.omx.ngs.Project

Get the Name of the person to which the data has been shipped..

getResultShippedTo(Database) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getResultShippedTo_Id() - Method in class org.molgenis.omx.ngs.Project

getResultShippedTo_UserName() - Method in class org.molgenis.omx.ngs.Project

Get a pretty label UserName for cross reference ResultShippedTo to NgsUser.Id.

getResultShippedUser() - Method in class org.molgenis.omx.ngs.Project

Get the The user who shipped the date..

getResultShippedUser(Database) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getResultShippedUser_Id() - Method in class org.molgenis.omx.ngs.Project

getResultShippedUser_UserName() - Method in class org.molgenis.omx.ngs.Project

Get a pretty label UserName for cross reference ResultShippedUser to NgsUser.Id.

getRows() - Method in class org.molgenis.ngs.plugins.worksheet.WorksheetModel

getRun() - Method in class org.molgenis.omx.ngs.Flowcell

Get the The run number always use 4 digits (with leading 0's).

getRun(Database) - Method in class org.molgenis.omx.ngs.Flowcell

Deprecated.

getRunDate() - Method in class org.molgenis.omx.ngs.Flowcell

Get the The date the flowcell was run on the machine..

getRunDate(Database) - Method in class org.molgenis.omx.ngs.Flowcell

Deprecated.

getSample() - Method in class org.molgenis.omx.ngs.FlowcellLane

Get the Sample.

getSample(Database) - Method in class org.molgenis.omx.ngs.FlowcellLane

Deprecated.

getSample() - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

Get the .

getSample(Database) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

Deprecated.

getSample_Id() - Method in class org.molgenis.omx.ngs.FlowcellLane

getSample_Id() - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

getSample_InternalId() - Method in class org.molgenis.omx.ngs.FlowcellLane

Get a pretty label InternalId for cross reference Sample to Sample.Id.

getSample_InternalId() - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

Get a pretty label InternalId for cross reference Sample to Sample.Id.

getSampleAmount() - Method in class org.molgenis.omx.ngs.Project

Get the Number of samples planned in this project.

getSampleAmount(Database) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getSampleBarcode() - Method in class org.molgenis.omx.ngs.Sample

Get the Multiple samples can be on one flowcell using barcodes..

getSampleBarcode(Database) - Method in class org.molgenis.omx.ngs.Sample

Deprecated.

getSampleBarcode_Id() - Method in class org.molgenis.omx.ngs.Sample

getSampleBarcode_SampleBarcodeName() - Method in class org.molgenis.omx.ngs.Sample

Get a pretty label SampleBarcodeName for cross reference SampleBarcode to SampleBarcode.Id.

getSampleBarcodeName() - Method in class org.molgenis.omx.ngs.SampleBarcode

Get the A concatenated value of Type, Nr and Sequence.

getSampleBarcodeName(Database) - Method in class org.molgenis.omx.ngs.SampleBarcode

Deprecated.

getSampleBarcodeNr() - Method in class org.molgenis.omx.ngs.SampleBarcode

Get the The identifier of a barcode given by the supplier.

getSampleBarcodeNr(Database) - Method in class org.molgenis.omx.ngs.SampleBarcode

Deprecated.

getSampleBarcodeSequence() - Method in class org.molgenis.omx.ngs.SampleBarcode

Get the The nucleotide sequence which forms the barcode.

getSampleBarcodeSequence(Database) - Method in class org.molgenis.omx.ngs.SampleBarcode

Deprecated.

getSampleBarcodeType() - Method in class org.molgenis.omx.ngs.SampleBarcode

Get the Type.

getSampleBarcodeType(Database) - Method in class org.molgenis.omx.ngs.SampleBarcode

Deprecated.

getSampleBarcodeType_Id() - Method in class org.molgenis.omx.ngs.SampleBarcode

getSampleBarcodeType_SampleBarcodeTypeName() - Method in class org.molgenis.omx.ngs.SampleBarcode

Get a pretty label SampleBarcodeTypeName for cross reference SampleBarcodeType to SampleBarcodeType.Id.

getSampleBarcodeTypeName() - Method in class org.molgenis.omx.ngs.SampleBarcodeType

Get the The name of a barcode type.

getSampleBarcodeTypeName(Database) - Method in class org.molgenis.omx.ngs.SampleBarcodeType

Deprecated.

getSampleComment() - Method in class org.molgenis.omx.ngs.Sample

Get the Comments about the sample.

getSampleComment(Database) - Method in class org.molgenis.omx.ngs.Sample

Deprecated.

getSampleInPool() - Method in class org.molgenis.omx.ngs.Sample

Get the List of samples inside the pool.

getSampleInPool(Database) - Method in class org.molgenis.omx.ngs.Sample

Deprecated.

getSampleInPool() - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

Get the .

getSampleInPool(Database) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

Deprecated.

getSampleInPool_Id() - Method in class org.molgenis.omx.ngs.Sample

getSampleInPool_Id() - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

getSampleInPool_InternalId() - Method in class org.molgenis.omx.ngs.Sample

Get a pretty label for cross reference SampleInPool to Sample.Id.

getSampleInPool_InternalId() - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

Get a pretty label InternalId for cross reference SampleInPool to Sample.Id.

getSampleInPoolSampleCollection() - Method in class org.molgenis.omx.ngs.Sample

getSampleInPoolSampleCollection(Database) - Method in class org.molgenis.omx.ngs.Sample

getSampleType() - Method in class org.molgenis.omx.ngs.Project

Get the Type of sample.

getSampleType(Database) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getSampleTypeLabel() - Method in class org.molgenis.omx.ngs.Project

Get tha label for enum SampleType.

getSampleTypeOptions() - Method in class org.molgenis.omx.ngs.Project

SampleType is enum.

getSearchField(String) - Method in class org.molgenis.ui.CapturingKitsFormController

getSearchField(String) - Method in class org.molgenis.ui.FlowcellLanesFormController

getSearchField(String) - Method in class org.molgenis.ui.FlowcellRunsFormController

getSearchField(String) - Method in class org.molgenis.ui.FlowcellsFormController

getSearchField(String) - Method in class org.molgenis.ui.PrepKitsFormController

getSearchField(String) - Method in class org.molgenis.ui.ProjectsFormController

getSearchField(String) - Method in class org.molgenis.ui.SampleBarcodesFormController

getSearchField(String) - Method in class org.molgenis.ui.SampleBarcodeTypesFormController

getSearchField(String) - Method in class org.molgenis.ui.Samples1FormController

getSearchField(String) - Method in class org.molgenis.ui.Samples2FormController

getSearchField(String) - Method in class org.molgenis.ui.SequencersFormController

getSearchField(String) - Method in class org.molgenis.ui.UsersFormController

getSeqType() - Method in class org.molgenis.omx.ngs.Project

Get the The type of sequencing..

getSeqType(Database) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getSeqTypeLabel() - Method in class org.molgenis.omx.ngs.Project

Get tha label for enum SeqType.

getSeqTypeOptions() - Method in class org.molgenis.omx.ngs.Project

SeqType is enum.

getTable() - Method in class org.molgenis.ngs.plugins.worksheet.WorksheetModel

getTableFieldName(String) - Method in class org.molgenis.omx.ngs.db.CapturingKitJpaMapper

getTableFieldName(String) - Method in class org.molgenis.omx.ngs.db.FlowcellJpaMapper

getTableFieldName(String) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneJpaMapper

getTableFieldName(String) - Method in class org.molgenis.omx.ngs.db.MachineJpaMapper

getTableFieldName(String) - Method in class org.molgenis.omx.ngs.db.NgsUserJpaMapper

getTableFieldName(String) - Method in class org.molgenis.omx.ngs.db.PrepKitJpaMapper

getTableFieldName(String) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistJpaMapper

getTableFieldName(String) - Method in class org.molgenis.omx.ngs.db.ProjectJpaMapper

getTableFieldName(String) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolJpaMapper

getTableFieldName(String) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeJpaMapper

getTableFieldName(String) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeJpaMapper

getTableFieldName(String) - Method in class org.molgenis.omx.ngs.db.SampleJpaMapper

getUserEmail() - Method in class org.molgenis.omx.ngs.NgsUser

Get the The email of a user..

getUserEmail(Database) - Method in class org.molgenis.omx.ngs.NgsUser

Deprecated.

getUserGroup() - Method in class org.molgenis.omx.ngs.NgsUser

Get the The group a user belongs to..

getUserGroup(Database) - Method in class org.molgenis.omx.ngs.NgsUser

Deprecated.

getUserGroupLabel() - Method in class org.molgenis.omx.ngs.NgsUser

Get tha label for enum UserGroup.

getUserGroupOptions() - Method in class org.molgenis.omx.ngs.NgsUser

UserGroup is enum.

getUserName() - Method in class org.molgenis.omx.ngs.NgsUser

Get the The name of a user.

getUserName(Database) - Method in class org.molgenis.omx.ngs.NgsUser

Deprecated.

getUserRole() - Method in class org.molgenis.omx.ngs.NgsUser

Get the The role the user has..

getUserRole(Database) - Method in class org.molgenis.omx.ngs.NgsUser

Deprecated.

getUserRoleLabel() - Method in class org.molgenis.omx.ngs.NgsUser

Get tha label for enum UserRole.

getUserRoleOptions() - Method in class org.molgenis.omx.ngs.NgsUser

UserRole is enum.

getValues(String) - Method in class org.molgenis.omx.ngs.CapturingKit

Deprecated.

getValues(String) - Method in class org.molgenis.omx.ngs.Flowcell

Deprecated.

getValues(String) - Method in class org.molgenis.omx.ngs.FlowcellLane

Deprecated.

getValues(String) - Method in class org.molgenis.omx.ngs.Machine

Deprecated.

getValues(String) - Method in class org.molgenis.omx.ngs.NgsUser

Deprecated.

getValues(String) - Method in class org.molgenis.omx.ngs.PrepKit

Deprecated.

getValues(String) - Method in class org.molgenis.omx.ngs.Project

Deprecated.

getValues(String) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Deprecated.

getValues(String) - Method in class org.molgenis.omx.ngs.Sample

Deprecated.

getValues(String) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

Deprecated.

getValues(String) - Method in class org.molgenis.omx.ngs.SampleBarcode

Deprecated.

getValues(String) - Method in class org.molgenis.omx.ngs.SampleBarcodeType

Deprecated.

getView() - Method in class org.molgenis.ngs.plugins.worksheet.Worksheet

getViewName() - Method in class org.molgenis.ngs.plugins.header.Header

getViewName() - Method in class org.molgenis.ngs.plugins.home.Home

getViewName() - Method in class org.molgenis.ngs.plugins.worksheet.Worksheet

getViewTemplate() - Method in class org.molgenis.ngs.plugins.header.Header

getViewTemplate() - Method in class org.molgenis.ngs.plugins.home.Home

getViewTemplate() - Method in class org.molgenis.ngs.plugins.worksheet.Worksheet

getXrefIdFieldName(String) - Method in class org.molgenis.omx.ngs.CapturingKit

getXrefIdFieldName(String) - Method in class org.molgenis.omx.ngs.Flowcell

getXrefIdFieldName(String) - Method in class org.molgenis.omx.ngs.FlowcellLane

getXrefIdFieldName(String) - Method in class org.molgenis.omx.ngs.Machine

getXrefIdFieldName(String) - Method in class org.molgenis.omx.ngs.NgsUser

getXrefIdFieldName(String) - Method in class org.molgenis.omx.ngs.PrepKit

getXrefIdFieldName(String) - Method in class org.molgenis.omx.ngs.Project

getXrefIdFieldName(String) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

getXrefIdFieldName(String) - Method in class org.molgenis.omx.ngs.Sample

getXrefIdFieldName(String) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

getXrefIdFieldName(String) - Method in class org.molgenis.omx.ngs.SampleBarcode

getXrefIdFieldName(String) - Method in class org.molgenis.omx.ngs.SampleBarcodeType

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.CapturingKitController

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.FlowcellController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.FlowcellLaneController

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.MachineController

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.NgsUserController

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.PrepKitController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.ProjectController

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.SampleBarcodeController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.SampleBarcodeTypeController

handleDatabaseAccessException(DatabaseAccessException) - Method in class org.molgenis.controller.SampleController

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.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.CapturingKitController

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.FlowcellController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.FlowcellLaneController

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.MachineController

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.NgsUserController

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.PrepKitController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.ProjectController

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.SampleBarcodeController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.SampleBarcodeTypeController

handleEntityNotFoundException(EntityNotFoundException) - Method in class org.molgenis.controller.SampleController

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.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.ngs.plugins.header.Header

handleRequest(Database, MolgenisRequest) - Method in class org.molgenis.ngs.plugins.home.Home

handleRequest(Database, MolgenisRequest) - Method in class org.molgenis.ngs.plugins.worksheet.Worksheet

handleRequest(MolgenisRequest, MolgenisResponse) - Method in class org.molgenis.ngs.services.DownloadFile

handleRequest(MolgenisRequest, MolgenisResponse) - Method in class org.molgenis.ngs.services.UploadFile

handleRequest(MolgenisRequest, MolgenisResponse) - Method in class org.molgenis.ngs.services.ViewFile

hashCode() - Method in class org.molgenis.omx.ngs.CapturingKit

hashCode() - Method in class org.molgenis.omx.ngs.Flowcell

hashCode() - Method in class org.molgenis.omx.ngs.FlowcellLane

hashCode() - Method in class org.molgenis.omx.ngs.Machine

hashCode() - Method in class org.molgenis.omx.ngs.NgsUser

hashCode() - Method in class org.molgenis.omx.ngs.PrepKit

hashCode() - Method in class org.molgenis.omx.ngs.Project

hashCode() - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

hashCode() - Method in class org.molgenis.omx.ngs.Sample

hashCode() - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

hashCode() - Method in class org.molgenis.omx.ngs.SampleBarcode

hashCode() - Method in class org.molgenis.omx.ngs.SampleBarcodeType

Header - Class in org.molgenis.ngs.plugins.header

Header(String, ScreenController<?>) - Constructor for class org.molgenis.ngs.plugins.header.Header

Header.HeaderModel - Class in org.molgenis.ngs.plugins.header

Header.HeaderModel() - Constructor for class org.molgenis.ngs.plugins.header.Header.HeaderModel

Home - Class in org.molgenis.ngs.plugins.home

Home(String, ScreenController<?>) - Constructor for class org.molgenis.ngs.plugins.home.Home

Home.HomeModel - Class in org.molgenis.ngs.plugins.home

Home.HomeModel() - Constructor for class org.molgenis.ngs.plugins.home.Home.HomeModel

HomePlugin - Class in org.molgenis.ui

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

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 - Static variable in class org.molgenis.omx.ngs.CapturingKit

ID - Static variable in class org.molgenis.omx.ngs.Flowcell

ID - Static variable in class org.molgenis.omx.ngs.FlowcellLane

ID - Static variable in class org.molgenis.omx.ngs.Machine

ID - Static variable in class org.molgenis.omx.ngs.NgsUser

ID - Static variable in class org.molgenis.omx.ngs.PrepKit

ID - Static variable in class org.molgenis.omx.ngs.Project

ID - Static variable in class org.molgenis.omx.ngs.Sample

ID - Static variable in class org.molgenis.omx.ngs.SampleBarcode

ID - Static variable in class org.molgenis.omx.ngs.SampleBarcodeType

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

importEntity(TupleReader, Database, Database.DatabaseAction) - Method in class org.molgenis.omx.ngs.db.CapturingKitEntityImporter

Imports CapturingKit from tab/comma delimited File

importEntity(TupleReader, Database, Database.DatabaseAction) - Method in class org.molgenis.omx.ngs.db.FlowcellEntityImporter

Imports Flowcell from tab/comma delimited File

importEntity(TupleReader, Database, Database.DatabaseAction) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneEntityImporter

Imports FlowcellLane from tab/comma delimited File

importEntity(TupleReader, Database, Database.DatabaseAction) - Method in class org.molgenis.omx.ngs.db.MachineEntityImporter

Imports Machine from tab/comma delimited File

importEntity(TupleReader, Database, Database.DatabaseAction) - Method in class org.molgenis.omx.ngs.db.NgsUserEntityImporter

Imports NgsUser from tab/comma delimited File

importEntity(TupleReader, Database, Database.DatabaseAction) - Method in class org.molgenis.omx.ngs.db.PrepKitEntityImporter

Imports PrepKit from tab/comma delimited File

importEntity(TupleReader, Database, Database.DatabaseAction) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistEntityImporter

Imports Project_ProjectAnalist from tab/comma delimited File

importEntity(TupleReader, Database, Database.DatabaseAction) - Method in class org.molgenis.omx.ngs.db.ProjectEntityImporter

Imports Project from tab/comma delimited File

importEntity(TupleReader, Database, Database.DatabaseAction) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolEntityImporter

Imports Sample_SampleInPool from tab/comma delimited File

importEntity(TupleReader, Database, Database.DatabaseAction) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeEntityImporter

Imports SampleBarcode from tab/comma delimited File

importEntity(TupleReader, Database, Database.DatabaseAction) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeEntityImporter

Imports SampleBarcodeType from tab/comma delimited File

importEntity(TupleReader, Database, Database.DatabaseAction) - Method in class org.molgenis.omx.ngs.db.SampleEntityImporter

Imports Sample from tab/comma delimited File

ImportWorksheet - Class in org.molgenis.ngs.importer

ImportWorksheet() - Constructor for class org.molgenis.ngs.importer.ImportWorksheet

index() - Method in class org.molgenis.ngs.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.ngs.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

INTERNALID - Static variable in class org.molgenis.omx.ngs.Sample

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

isVisible() - Method in class org.molgenis.ngs.plugins.header.Header

isVisible() - Method in class org.molgenis.ngs.plugins.home.Home

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

LABSTATUS - Static variable in class org.molgenis.omx.ngs.Sample

LANE - Static variable in class org.molgenis.omx.ngs.FlowcellLane

LANEAMOUNT - Static variable in class org.molgenis.omx.ngs.Project

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

MACHINE - Static variable in class org.molgenis.omx.ngs.Flowcell

Machine - Class in org.molgenis.omx.ngs

Machine: .

Machine() - Constructor for class org.molgenis.omx.ngs.Machine

Machine(Machine) - Constructor for class org.molgenis.omx.ngs.Machine

copy constructor

MACHINE_MACHINENAME - Static variable in class org.molgenis.omx.ngs.Flowcell

MachineController - Class in org.molgenis.controller

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

MachineEntityImporter - Class in org.molgenis.omx.ngs.db

Reads Machine from a delimited (csv) file, resolving xrefs to ids where needed, that is the tricky bit ;-)

MachineEntityImporter() - Constructor for class org.molgenis.omx.ngs.db.MachineEntityImporter

MachineForm - Class in org.molgenis.omx.ngs.ui

A HtmlForm that is preloaded with all inputs for entity Machine

MachineForm() - Constructor for class org.molgenis.omx.ngs.ui.MachineForm

MachineForm(Machine) - Constructor for class org.molgenis.omx.ngs.ui.MachineForm

MachineJpaMapper - Class in org.molgenis.omx.ngs.db

MachineJpaMapper(Database) - Constructor for class org.molgenis.omx.ngs.db.MachineJpaMapper

MACHINENAME - Static variable in class org.molgenis.omx.ngs.Machine

MachineSecurityDecorator<E extends Machine> - Class in org.molgenis.omx.ngs.db

TODO add column level security filters

MachineSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.ngs.db.MachineSecurityDecorator

MachineService - Class in org.molgenis.service

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

mailSender() - Method in class org.molgenis.ngs.WebAppConfig

main(String[]) - Static method in class org.molgenis.ngs.importer.ImportWorksheet

MainMenu - Class in org.molgenis.ui

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

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

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

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

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

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

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.ngs.WebAppConfig

N

Ngs_HeaderPlugin - Class in org.molgenis.ui

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

NgsUser - Class in org.molgenis.omx.ngs

NgsUser: An NgsUser bundles information about a user..

NgsUser() - Constructor for class org.molgenis.omx.ngs.NgsUser

NgsUser(NgsUser) - Constructor for class org.molgenis.omx.ngs.NgsUser

copy constructor

NgsUserController - Class in org.molgenis.controller

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

NgsUserEntityImporter - Class in org.molgenis.omx.ngs.db

Reads NgsUser from a delimited (csv) file, resolving xrefs to ids where needed, that is the tricky bit ;-)

NgsUserEntityImporter() - Constructor for class org.molgenis.omx.ngs.db.NgsUserEntityImporter

NgsUserForm - Class in org.molgenis.omx.ngs.ui

A HtmlForm that is preloaded with all inputs for entity NgsUser

NgsUserForm() - Constructor for class org.molgenis.omx.ngs.ui.NgsUserForm

NgsUserForm(NgsUser) - Constructor for class org.molgenis.omx.ngs.ui.NgsUserForm

NgsUserJpaMapper - Class in org.molgenis.omx.ngs.db

NgsUserJpaMapper(Database) - Constructor for class org.molgenis.omx.ngs.db.NgsUserJpaMapper

NgsUserSecurityDecorator<E extends NgsUser> - Class in org.molgenis.omx.ngs.db

TODO add column level security filters

NgsUserSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.ngs.db.NgsUserSecurityDecorator

NgsUserService - Class in org.molgenis.service

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

O

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.ngs.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.controller - package org.molgenis.controller

org.molgenis.ngs - package org.molgenis.ngs

org.molgenis.ngs.decorators - package org.molgenis.ngs.decorators

org.molgenis.ngs.importer - package org.molgenis.ngs.importer

org.molgenis.ngs.plugins.header - package org.molgenis.ngs.plugins.header

org.molgenis.ngs.plugins.home - package org.molgenis.ngs.plugins.home

org.molgenis.ngs.plugins.worksheet - package org.molgenis.ngs.plugins.worksheet

org.molgenis.ngs.services - package org.molgenis.ngs.services

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.ngs - package org.molgenis.omx.ngs

org.molgenis.omx.ngs.db - package org.molgenis.omx.ngs.db

org.molgenis.omx.ngs.ui - package org.molgenis.omx.ngs.ui

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.service - package org.molgenis.service

org.molgenis.servlet - package org.molgenis.servlet

org.molgenis.ui - package org.molgenis.ui

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

PerformUpload - Class in org.molgenis.ngs.services

PerformUpload() - Constructor for class org.molgenis.ngs.services.PerformUpload

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

prepareFileAttachements(List<CapturingKit>, File) - Method in class org.molgenis.omx.ngs.db.CapturingKitJpaMapper

prepareFileAttachements(List<Flowcell>, File) - Method in class org.molgenis.omx.ngs.db.FlowcellJpaMapper

prepareFileAttachements(List<FlowcellLane>, File) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneJpaMapper

prepareFileAttachements(List<Machine>, File) - Method in class org.molgenis.omx.ngs.db.MachineJpaMapper

prepareFileAttachements(List<NgsUser>, File) - Method in class org.molgenis.omx.ngs.db.NgsUserJpaMapper

prepareFileAttachements(List<PrepKit>, File) - Method in class org.molgenis.omx.ngs.db.PrepKitJpaMapper

prepareFileAttachements(List<Project_ProjectAnalist>, File) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistJpaMapper

prepareFileAttachements(List<Project>, File) - Method in class org.molgenis.omx.ngs.db.ProjectJpaMapper

prepareFileAttachements(List<Sample_SampleInPool>, File) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolJpaMapper

prepareFileAttachements(List<SampleBarcode>, File) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeJpaMapper

prepareFileAttachements(List<SampleBarcodeType>, File) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeJpaMapper

prepareFileAttachements(List<Sample>, File) - Method in class org.molgenis.omx.ngs.db.SampleJpaMapper

PrepKit - Class in org.molgenis.omx.ngs

PrepKit: .

PrepKit() - Constructor for class org.molgenis.omx.ngs.PrepKit

PrepKit(PrepKit) - Constructor for class org.molgenis.omx.ngs.PrepKit

copy constructor

PREPKIT - Static variable in class org.molgenis.omx.ngs.Project

PREPKIT_PREPKITNAME - Static variable in class org.molgenis.omx.ngs.Project

PrepKitController - Class in org.molgenis.controller

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

PrepKitEntityImporter - Class in org.molgenis.omx.ngs.db

Reads PrepKit from a delimited (csv) file, resolving xrefs to ids where needed, that is the tricky bit ;-)

PrepKitEntityImporter() - Constructor for class org.molgenis.omx.ngs.db.PrepKitEntityImporter

PrepKitForm - Class in org.molgenis.omx.ngs.ui

A HtmlForm that is preloaded with all inputs for entity PrepKit

PrepKitForm() - Constructor for class org.molgenis.omx.ngs.ui.PrepKitForm

PrepKitForm(PrepKit) - Constructor for class org.molgenis.omx.ngs.ui.PrepKitForm

PrepKitJpaMapper - Class in org.molgenis.omx.ngs.db

PrepKitJpaMapper(Database) - Constructor for class org.molgenis.omx.ngs.db.PrepKitJpaMapper

PREPKITNAME - Static variable in class org.molgenis.omx.ngs.PrepKit

PrepKitSecurityDecorator<E extends PrepKit> - Class in org.molgenis.omx.ngs.db

TODO add column level security filters

PrepKitSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.ngs.db.PrepKitSecurityDecorator

PrepKitService - Class in org.molgenis.service

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

PrepKitsFormController - Class in org.molgenis.ui

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

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

Project - Class in org.molgenis.omx.ngs

Project: A Project bundles information about one project..

Project() - Constructor for class org.molgenis.omx.ngs.Project

Project(Project) - Constructor for class org.molgenis.omx.ngs.Project

copy constructor

PROJECT - Static variable in class org.molgenis.omx.ngs.Project_ProjectAnalist

Project_ProjectAnalist - Class in org.molgenis.omx.ngs

Project_ProjectAnalist: Link table for many-to-many relationship 'Project.ProjectAnalist'..

Project_ProjectAnalist() - Constructor for class org.molgenis.omx.ngs.Project_ProjectAnalist

Project_ProjectAnalist(Project_ProjectAnalist) - Constructor for class org.molgenis.omx.ngs.Project_ProjectAnalist

copy constructor

Project_ProjectAnalistEntityImporter - Class in org.molgenis.omx.ngs.db

Reads Project_ProjectAnalist from a delimited (csv) file, resolving xrefs to ids where needed, that is the tricky bit ;-)

Project_ProjectAnalistEntityImporter() - Constructor for class org.molgenis.omx.ngs.db.Project_ProjectAnalistEntityImporter

Project_ProjectAnalistForm - Class in org.molgenis.omx.ngs.ui

A HtmlForm that is preloaded with all inputs for entity Project_ProjectAnalist

Project_ProjectAnalistForm() - Constructor for class org.molgenis.omx.ngs.ui.Project_ProjectAnalistForm

Project_ProjectAnalistForm(Project_ProjectAnalist) - Constructor for class org.molgenis.omx.ngs.ui.Project_ProjectAnalistForm

Project_ProjectAnalistJpaMapper - Class in org.molgenis.omx.ngs.db

Project_ProjectAnalistJpaMapper(Database) - Constructor for class org.molgenis.omx.ngs.db.Project_ProjectAnalistJpaMapper

Project_ProjectAnalistSecurityDecorator<E extends Project_ProjectAnalist> - Class in org.molgenis.omx.ngs.db

TODO add column level security filters

Project_ProjectAnalistSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.ngs.db.Project_ProjectAnalistSecurityDecorator

PROJECT_PROJECTNAME - Static variable in class org.molgenis.omx.ngs.Project_ProjectAnalist

PROJECTANALIST - Static variable in class org.molgenis.omx.ngs.Project

PROJECTANALIST - Static variable in class org.molgenis.omx.ngs.Project_ProjectAnalist

PROJECTANALIST_USERNAME - Static variable in class org.molgenis.omx.ngs.Project

PROJECTANALIST_USERNAME - Static variable in class org.molgenis.omx.ngs.Project_ProjectAnalist

PROJECTCOMMENT - Static variable in class org.molgenis.omx.ngs.Project

ProjectController - Class in org.molgenis.controller

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

PROJECTCUSTOMER - Static variable in class org.molgenis.omx.ngs.Project

PROJECTCUSTOMER_USERNAME - Static variable in class org.molgenis.omx.ngs.Project

ProjectEntityImporter - Class in org.molgenis.omx.ngs.db

Reads Project from a delimited (csv) file, resolving xrefs to ids where needed, that is the tricky bit ;-)

ProjectEntityImporter() - Constructor for class org.molgenis.omx.ngs.db.ProjectEntityImporter

ProjectForm - Class in org.molgenis.omx.ngs.ui

A HtmlForm that is preloaded with all inputs for entity Project

ProjectForm() - Constructor for class org.molgenis.omx.ngs.ui.ProjectForm

ProjectForm(Project) - Constructor for class org.molgenis.omx.ngs.ui.ProjectForm

PROJECTID - Static variable in class org.molgenis.omx.ngs.Sample

PROJECTID_PROJECTNAME - Static variable in class org.molgenis.omx.ngs.Sample

ProjectJpaMapper - Class in org.molgenis.omx.ngs.db

ProjectJpaMapper(Database) - Constructor for class org.molgenis.omx.ngs.db.ProjectJpaMapper

PROJECTNAME - Static variable in class org.molgenis.omx.ngs.Project

PROJECTPLANNEDFINISHDATE - Static variable in class org.molgenis.omx.ngs.Project

ProjectSecurityDecorator<E extends Project> - Class in org.molgenis.omx.ngs.db

TODO add column level security filters

ProjectSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.ngs.db.ProjectSecurityDecorator

ProjectService - Class in org.molgenis.service

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

ProjectsFormController - Class in org.molgenis.ui

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

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

properties() - Static method in class org.molgenis.ngs.WebAppConfig

ProtocolController - Class in org.molgenis.controller

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

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

Q

QCDRYDATE - Static variable in class org.molgenis.omx.ngs.FlowcellLane

QCDRYMET - Static variable in class org.molgenis.omx.ngs.FlowcellLane

QCDRYUSER - Static variable in class org.molgenis.omx.ngs.FlowcellLane

QCDRYUSER_USERNAME - Static variable in class org.molgenis.omx.ngs.FlowcellLane

QCWETDATE - Static variable in class org.molgenis.omx.ngs.FlowcellLane

QCWETMET - Static variable in class org.molgenis.omx.ngs.FlowcellLane

QCWETUSER - Static variable in class org.molgenis.omx.ngs.FlowcellLane

QCWETUSER_USERNAME - Static variable in class org.molgenis.omx.ngs.FlowcellLane

query(Database) - Static method in class org.molgenis.omx.ngs.CapturingKit

Shorthand for db.query(CapturingKit.class).

query(Database) - Static method in class org.molgenis.omx.ngs.Flowcell

Shorthand for db.query(Flowcell.class).

query(Database) - Static method in class org.molgenis.omx.ngs.FlowcellLane

Shorthand for db.query(FlowcellLane.class).

query(Database) - Static method in class org.molgenis.omx.ngs.Machine

Shorthand for db.query(Machine.class).

query(Database) - Static method in class org.molgenis.omx.ngs.NgsUser

Shorthand for db.query(NgsUser.class).

query(Database) - Static method in class org.molgenis.omx.ngs.PrepKit

Shorthand for db.query(PrepKit.class).

query(Database) - Static method in class org.molgenis.omx.ngs.Project

Shorthand for db.query(Project.class).

query(Database) - Static method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Shorthand for db.query(Project_ProjectAnalist.class).

query(Database) - Static method in class org.molgenis.omx.ngs.Sample

Shorthand for db.query(Sample.class).

query(Database) - Static method in class org.molgenis.omx.ngs.Sample_SampleInPool

Shorthand for db.query(Sample_SampleInPool.class).

query(Database) - Static method in class org.molgenis.omx.ngs.SampleBarcode

Shorthand for db.query(SampleBarcode.class).

query(Database) - Static method in class org.molgenis.omx.ngs.SampleBarcodeType

Shorthand for db.query(SampleBarcodeType.class).

R

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.CapturingKitService

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.FlowcellLaneService

read(Integer) - Method in class org.molgenis.service.FlowcellService

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.MachineService

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.NgsUserService

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.PrepKitService

read(Integer) - Method in class org.molgenis.service.ProjectService

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.SampleBarcodeService

read(Integer) - Method in class org.molgenis.service.SampleBarcodeTypeService

read(Integer) - Method in class org.molgenis.service.SampleService

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.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.CapturingKitService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.CapturingKitService

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.FlowcellLaneService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.FlowcellLaneService

readAll() - Method in class org.molgenis.service.FlowcellService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.FlowcellService

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.MachineService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.MachineService

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.NgsUserService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.NgsUserService

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.PrepKitService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.PrepKitService

readAll() - Method in class org.molgenis.service.ProjectService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.ProjectService

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.SampleBarcodeService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.SampleBarcodeService

readAll() - Method in class org.molgenis.service.SampleBarcodeTypeService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.SampleBarcodeTypeService

readAll() - Method in class org.molgenis.service.SampleService

readAll(int, int, List<QueryRule>) - Method in class org.molgenis.service.SampleService

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.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

reload(Database) - Method in class org.molgenis.ngs.plugins.header.Header

reload(Database) - Method in class org.molgenis.ngs.plugins.home.Home

reload(Database) - Method in class org.molgenis.ngs.plugins.worksheet.Worksheet

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.ngs.db.CapturingKitSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.ngs.db.CapturingKitSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.ngs.db.FlowcellSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.ngs.db.FlowcellSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.ngs.db.MachineSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.ngs.db.MachineSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.ngs.db.NgsUserSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.ngs.db.NgsUserSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.ngs.db.PrepKitSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.ngs.db.PrepKitSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.ngs.db.ProjectSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.ngs.db.ProjectSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeSecurityDecorator

remove(List<E>) - Method in class org.molgenis.omx.ngs.db.SampleSecurityDecorator

remove(TupleReader) - Method in class org.molgenis.omx.ngs.db.SampleSecurityDecorator

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.CapturingKitsFormController

resetCompactView() - Method in class org.molgenis.ui.FlowcellLanesFormController

resetCompactView() - Method in class org.molgenis.ui.FlowcellRunsFormController

resetCompactView() - Method in class org.molgenis.ui.FlowcellsFormController

resetCompactView() - Method in class org.molgenis.ui.PrepKitsFormController

resetCompactView() - Method in class org.molgenis.ui.ProjectsFormController

resetCompactView() - Method in class org.molgenis.ui.SampleBarcodesFormController

resetCompactView() - Method in class org.molgenis.ui.SampleBarcodeTypesFormController

resetCompactView() - Method in class org.molgenis.ui.Samples1FormController

resetCompactView() - Method in class org.molgenis.ui.Samples2FormController

resetCompactView() - Method in class org.molgenis.ui.SequencersFormController

resetCompactView() - Method in class org.molgenis.ui.UsersFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.CapturingKitsFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.FlowcellLanesFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.FlowcellRunsFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.FlowcellsFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.PrepKitsFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.ProjectsFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.SampleBarcodesFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.SampleBarcodeTypesFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.Samples1FormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.Samples2FormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.SequencersFormController

resetSystemHiddenColumns() - Method in class org.molgenis.ui.UsersFormController

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<CapturingKit>) - Method in class org.molgenis.omx.ngs.db.CapturingKitJpaMapper

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.ngs.db.CapturingKitSecurityDecorator

resolveForeignKeys(List<Flowcell>) - Method in class org.molgenis.omx.ngs.db.FlowcellJpaMapper

resolveForeignKeys(List<FlowcellLane>) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneJpaMapper

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneSecurityDecorator

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.ngs.db.FlowcellSecurityDecorator

resolveForeignKeys(List<Machine>) - Method in class org.molgenis.omx.ngs.db.MachineJpaMapper

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.ngs.db.MachineSecurityDecorator

resolveForeignKeys(List<NgsUser>) - Method in class org.molgenis.omx.ngs.db.NgsUserJpaMapper

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.ngs.db.NgsUserSecurityDecorator

resolveForeignKeys(List<PrepKit>) - Method in class org.molgenis.omx.ngs.db.PrepKitJpaMapper

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.ngs.db.PrepKitSecurityDecorator

resolveForeignKeys(List<Project_ProjectAnalist>) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistJpaMapper

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistSecurityDecorator

resolveForeignKeys(List<Project>) - Method in class org.molgenis.omx.ngs.db.ProjectJpaMapper

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.ngs.db.ProjectSecurityDecorator

resolveForeignKeys(List<Sample_SampleInPool>) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolJpaMapper

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolSecurityDecorator

resolveForeignKeys(List<SampleBarcode>) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeJpaMapper

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeSecurityDecorator

resolveForeignKeys(List<SampleBarcodeType>) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeJpaMapper

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeSecurityDecorator

resolveForeignKeys(List<Sample>) - Method in class org.molgenis.omx.ngs.db.SampleJpaMapper

resolveForeignKeys(List<E>) - Method in class org.molgenis.omx.ngs.db.SampleSecurityDecorator

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

RESULTFILESDIR - Static variable in class org.molgenis.omx.ngs.Project

RESULTSHIPPEDDATE - Static variable in class org.molgenis.omx.ngs.Project

RESULTSHIPPEDTO - Static variable in class org.molgenis.omx.ngs.Project

RESULTSHIPPEDTO_USERNAME - Static variable in class org.molgenis.omx.ngs.Project

RESULTSHIPPEDUSER - Static variable in class org.molgenis.omx.ngs.Project

RESULTSHIPPEDUSER_USERNAME - Static variable in class org.molgenis.omx.ngs.Project

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

retrieveCapturingKit(Integer, String...) - Method in class org.molgenis.controller.CapturingKitController

retrieveCapturingKitCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.CapturingKitController

retrieveCapturingKitCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.CapturingKitController

retrieveCapturingKitCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.CapturingKitController

retrieveCapturingKitCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.CapturingKitController

retrieveCapturingKitJson(Integer, String...) - Method in class org.molgenis.controller.CapturingKitController

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

retrieveFlowcell(Integer, String...) - Method in class org.molgenis.controller.FlowcellController

retrieveFlowcellCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.FlowcellController

retrieveFlowcellCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.FlowcellController

retrieveFlowcellCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.FlowcellController

retrieveFlowcellCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.FlowcellController

retrieveFlowcellJson(Integer, String...) - Method in class org.molgenis.controller.FlowcellController

retrieveFlowcellLane(Integer, String...) - Method in class org.molgenis.controller.FlowcellLaneController

retrieveFlowcellLaneCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.FlowcellLaneController

retrieveFlowcellLaneCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.FlowcellLaneController

retrieveFlowcellLaneCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.FlowcellLaneController

retrieveFlowcellLaneCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.FlowcellLaneController

retrieveFlowcellLaneJson(Integer, String...) - Method in class org.molgenis.controller.FlowcellLaneController

retrieveFlowcellLaneXrefFlowcell(Integer, String...) - Method in class org.molgenis.controller.FlowcellLaneController

retrieveFlowcellLaneXrefFlowcellJson(Integer, String...) - Method in class org.molgenis.controller.FlowcellLaneController

retrieveFlowcellLaneXrefQcDryUser(Integer, String...) - Method in class org.molgenis.controller.FlowcellLaneController

retrieveFlowcellLaneXrefQcDryUserJson(Integer, String...) - Method in class org.molgenis.controller.FlowcellLaneController

retrieveFlowcellLaneXrefQcWetUser(Integer, String...) - Method in class org.molgenis.controller.FlowcellLaneController

retrieveFlowcellLaneXrefQcWetUserJson(Integer, String...) - Method in class org.molgenis.controller.FlowcellLaneController

retrieveFlowcellLaneXrefSample(Integer, String...) - Method in class org.molgenis.controller.FlowcellLaneController

retrieveFlowcellLaneXrefSampleJson(Integer, String...) - Method in class org.molgenis.controller.FlowcellLaneController

retrieveFlowcellXrefMachine(Integer, String...) - Method in class org.molgenis.controller.FlowcellController

retrieveFlowcellXrefMachineJson(Integer, String...) - Method in class org.molgenis.controller.FlowcellController

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

retrieveMachine(Integer, String...) - Method in class org.molgenis.controller.MachineController

retrieveMachineCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.MachineController

retrieveMachineCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.MachineController

retrieveMachineCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.MachineController

retrieveMachineCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.MachineController

retrieveMachineJson(Integer, String...) - Method in class org.molgenis.controller.MachineController

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

retrieveNgsUser(Integer, String...) - Method in class org.molgenis.controller.NgsUserController

retrieveNgsUserCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.NgsUserController

retrieveNgsUserCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.NgsUserController

retrieveNgsUserCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.NgsUserController

retrieveNgsUserCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.NgsUserController

retrieveNgsUserJson(Integer, String...) - Method in class org.molgenis.controller.NgsUserController

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

retrievePrepKit(Integer, String...) - Method in class org.molgenis.controller.PrepKitController

retrievePrepKitCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PrepKitController

retrievePrepKitCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PrepKitController

retrievePrepKitCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PrepKitController

retrievePrepKitCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.PrepKitController

retrievePrepKitJson(Integer, String...) - Method in class org.molgenis.controller.PrepKitController

retrieveProject(Integer, String...) - Method in class org.molgenis.controller.ProjectController

retrieveProjectCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ProjectController

retrieveProjectCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ProjectController

retrieveProjectCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ProjectController

retrieveProjectCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ProjectController

retrieveProjectJson(Integer, String...) - Method in class org.molgenis.controller.ProjectController

retrieveProjectMrefProjectAnalist(Integer, EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ProjectController

retrieveProjectMrefProjectAnalistJson(Integer, EntityCollectionRequest, String...) - Method in class org.molgenis.controller.ProjectController

retrieveProjectXrefPrepKit(Integer, String...) - Method in class org.molgenis.controller.ProjectController

retrieveProjectXrefPrepKitJson(Integer, String...) - Method in class org.molgenis.controller.ProjectController

retrieveProjectXrefProjectCustomer(Integer, String...) - Method in class org.molgenis.controller.ProjectController

retrieveProjectXrefProjectCustomerJson(Integer, String...) - Method in class org.molgenis.controller.ProjectController

retrieveProjectXrefResultShippedTo(Integer, String...) - Method in class org.molgenis.controller.ProjectController

retrieveProjectXrefResultShippedToJson(Integer, String...) - Method in class org.molgenis.controller.ProjectController

retrieveProjectXrefResultShippedUser(Integer, String...) - Method in class org.molgenis.controller.ProjectController

retrieveProjectXrefResultShippedUserJson(Integer, String...) - Method in class org.molgenis.controller.ProjectController

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

retrieveSample(Integer, String...) - Method in class org.molgenis.controller.SampleController

retrieveSampleBarcode(Integer, String...) - Method in class org.molgenis.controller.SampleBarcodeController

retrieveSampleBarcodeCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.SampleBarcodeController

retrieveSampleBarcodeCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.SampleBarcodeController

retrieveSampleBarcodeCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.SampleBarcodeController

retrieveSampleBarcodeCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.SampleBarcodeController

retrieveSampleBarcodeJson(Integer, String...) - Method in class org.molgenis.controller.SampleBarcodeController

retrieveSampleBarcodeType(Integer, String...) - Method in class org.molgenis.controller.SampleBarcodeTypeController

retrieveSampleBarcodeTypeCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.SampleBarcodeTypeController

retrieveSampleBarcodeTypeCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.SampleBarcodeTypeController

retrieveSampleBarcodeTypeCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.SampleBarcodeTypeController

retrieveSampleBarcodeTypeCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.SampleBarcodeTypeController

retrieveSampleBarcodeTypeJson(Integer, String...) - Method in class org.molgenis.controller.SampleBarcodeTypeController

retrieveSampleBarcodeXrefSampleBarcodeType(Integer, String...) - Method in class org.molgenis.controller.SampleBarcodeController

retrieveSampleBarcodeXrefSampleBarcodeTypeJson(Integer, String...) - Method in class org.molgenis.controller.SampleBarcodeController

retrieveSampleCollection(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.SampleController

retrieveSampleCollectionJson(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.SampleController

retrieveSampleCollectionJsonPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.SampleController

retrieveSampleCollectionPost(EntityCollectionRequest, String...) - Method in class org.molgenis.controller.SampleController

retrieveSampleJson(Integer, String...) - Method in class org.molgenis.controller.SampleController

retrieveSampleMrefSampleInPool(Integer, EntityCollectionRequest, String...) - Method in class org.molgenis.controller.SampleController

retrieveSampleMrefSampleInPoolJson(Integer, EntityCollectionRequest, String...) - Method in class org.molgenis.controller.SampleController

retrieveSampleXrefCapturingKit(Integer, String...) - Method in class org.molgenis.controller.SampleController

retrieveSampleXrefCapturingKitJson(Integer, String...) - Method in class org.molgenis.controller.SampleController

retrieveSampleXrefProjectId(Integer, String...) - Method in class org.molgenis.controller.SampleController

retrieveSampleXrefProjectIdJson(Integer, String...) - Method in class org.molgenis.controller.SampleController

retrieveSampleXrefSampleBarcode(Integer, String...) - Method in class org.molgenis.controller.SampleController

retrieveSampleXrefSampleBarcodeJson(Integer, String...) - Method in class org.molgenis.controller.SampleController

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

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

RUN - Static variable in class org.molgenis.omx.ngs.Flowcell

RUNDATE - Static variable in class org.molgenis.omx.ngs.Flowcell

RuntimePropertyController - Class in org.molgenis.controller

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

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

SAMPLE - Static variable in class org.molgenis.omx.ngs.FlowcellLane

Sample - Class in org.molgenis.omx.ngs

Sample: A Sample bundles information about a sample.

Sample() - Constructor for class org.molgenis.omx.ngs.Sample

Sample(Sample) - Constructor for class org.molgenis.omx.ngs.Sample

copy constructor

SAMPLE - Static variable in class org.molgenis.omx.ngs.Sample_SampleInPool

SAMPLE_INTERNALID - Static variable in class org.molgenis.omx.ngs.FlowcellLane

SAMPLE_INTERNALID - Static variable in class org.molgenis.omx.ngs.Sample_SampleInPool

Sample_SampleInPool - Class in org.molgenis.omx.ngs

Sample_SampleInPool: Link table for many-to-many relationship 'Sample.SampleInPool'..

Sample_SampleInPool() - Constructor for class org.molgenis.omx.ngs.Sample_SampleInPool

Sample_SampleInPool(Sample_SampleInPool) - Constructor for class org.molgenis.omx.ngs.Sample_SampleInPool

copy constructor

Sample_SampleInPoolEntityImporter - Class in org.molgenis.omx.ngs.db

Reads Sample_SampleInPool from a delimited (csv) file, resolving xrefs to ids where needed, that is the tricky bit ;-)

Sample_SampleInPoolEntityImporter() - Constructor for class org.molgenis.omx.ngs.db.Sample_SampleInPoolEntityImporter

Sample_SampleInPoolForm - Class in org.molgenis.omx.ngs.ui

A HtmlForm that is preloaded with all inputs for entity Sample_SampleInPool

Sample_SampleInPoolForm() - Constructor for class org.molgenis.omx.ngs.ui.Sample_SampleInPoolForm

Sample_SampleInPoolForm(Sample_SampleInPool) - Constructor for class org.molgenis.omx.ngs.ui.Sample_SampleInPoolForm

Sample_SampleInPoolJpaMapper - Class in org.molgenis.omx.ngs.db

Sample_SampleInPoolJpaMapper(Database) - Constructor for class org.molgenis.omx.ngs.db.Sample_SampleInPoolJpaMapper

Sample_SampleInPoolSecurityDecorator<E extends Sample_SampleInPool> - Class in org.molgenis.omx.ngs.db

TODO add column level security filters

Sample_SampleInPoolSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.ngs.db.Sample_SampleInPoolSecurityDecorator

SAMPLEAMOUNT - Static variable in class org.molgenis.omx.ngs.Project

SAMPLEBARCODE - Static variable in class org.molgenis.omx.ngs.Sample

SampleBarcode - Class in org.molgenis.omx.ngs

SampleBarcode: .

SampleBarcode() - Constructor for class org.molgenis.omx.ngs.SampleBarcode

SampleBarcode(SampleBarcode) - Constructor for class org.molgenis.omx.ngs.SampleBarcode

copy constructor

SAMPLEBARCODE_SAMPLEBARCODENAME - Static variable in class org.molgenis.omx.ngs.Sample

SampleBarcodeController - Class in org.molgenis.controller

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

SampleBarcodeEntityImporter - Class in org.molgenis.omx.ngs.db

Reads SampleBarcode from a delimited (csv) file, resolving xrefs to ids where needed, that is the tricky bit ;-)

SampleBarcodeEntityImporter() - Constructor for class org.molgenis.omx.ngs.db.SampleBarcodeEntityImporter

SampleBarcodeForm - Class in org.molgenis.omx.ngs.ui

A HtmlForm that is preloaded with all inputs for entity SampleBarcode

SampleBarcodeForm() - Constructor for class org.molgenis.omx.ngs.ui.SampleBarcodeForm

SampleBarcodeForm(SampleBarcode) - Constructor for class org.molgenis.omx.ngs.ui.SampleBarcodeForm

SampleBarcodeJpaMapper - Class in org.molgenis.omx.ngs.db

SampleBarcodeJpaMapper(Database) - Constructor for class org.molgenis.omx.ngs.db.SampleBarcodeJpaMapper

SAMPLEBARCODENAME - Static variable in class org.molgenis.omx.ngs.SampleBarcode

SAMPLEBARCODENR - Static variable in class org.molgenis.omx.ngs.SampleBarcode

SampleBarcodeSecurityDecorator<E extends SampleBarcode> - Class in org.molgenis.omx.ngs.db

TODO add column level security filters

SampleBarcodeSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.ngs.db.SampleBarcodeSecurityDecorator

SAMPLEBARCODESEQUENCE - Static variable in class org.molgenis.omx.ngs.SampleBarcode

SampleBarcodeService - Class in org.molgenis.service

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

SampleBarcodesFormController - Class in org.molgenis.ui

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

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

SAMPLEBARCODETYPE - Static variable in class org.molgenis.omx.ngs.SampleBarcode

SampleBarcodeType - Class in org.molgenis.omx.ngs

SampleBarcodeType: .

SampleBarcodeType() - Constructor for class org.molgenis.omx.ngs.SampleBarcodeType

SampleBarcodeType(SampleBarcodeType) - Constructor for class org.molgenis.omx.ngs.SampleBarcodeType

copy constructor

SAMPLEBARCODETYPE_SAMPLEBARCODETYPENAME - Static variable in class org.molgenis.omx.ngs.SampleBarcode

SampleBarcodeTypeController - Class in org.molgenis.controller

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

SampleBarcodeTypeEntityImporter - Class in org.molgenis.omx.ngs.db

Reads SampleBarcodeType from a delimited (csv) file, resolving xrefs to ids where needed, that is the tricky bit ;-)

SampleBarcodeTypeEntityImporter() - Constructor for class org.molgenis.omx.ngs.db.SampleBarcodeTypeEntityImporter

SampleBarcodeTypeForm - Class in org.molgenis.omx.ngs.ui

A HtmlForm that is preloaded with all inputs for entity SampleBarcodeType

SampleBarcodeTypeForm() - Constructor for class org.molgenis.omx.ngs.ui.SampleBarcodeTypeForm

SampleBarcodeTypeForm(SampleBarcodeType) - Constructor for class org.molgenis.omx.ngs.ui.SampleBarcodeTypeForm

SampleBarcodeTypeJpaMapper - Class in org.molgenis.omx.ngs.db

SampleBarcodeTypeJpaMapper(Database) - Constructor for class org.molgenis.omx.ngs.db.SampleBarcodeTypeJpaMapper

SAMPLEBARCODETYPENAME - Static variable in class org.molgenis.omx.ngs.SampleBarcodeType

SampleBarcodeTypeSecurityDecorator<E extends SampleBarcodeType> - Class in org.molgenis.omx.ngs.db

TODO add column level security filters

SampleBarcodeTypeSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.ngs.db.SampleBarcodeTypeSecurityDecorator

SampleBarcodeTypeService - Class in org.molgenis.service

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

SampleBarcodeTypesFormController - Class in org.molgenis.ui

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

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

SAMPLECOMMENT - Static variable in class org.molgenis.omx.ngs.Sample

SampleController - Class in org.molgenis.controller

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

SampleEntityImporter - Class in org.molgenis.omx.ngs.db

Reads Sample from a delimited (csv) file, resolving xrefs to ids where needed, that is the tricky bit ;-)

SampleEntityImporter() - Constructor for class org.molgenis.omx.ngs.db.SampleEntityImporter

SampleForm - Class in org.molgenis.omx.ngs.ui

A HtmlForm that is preloaded with all inputs for entity Sample

SampleForm() - Constructor for class org.molgenis.omx.ngs.ui.SampleForm

SampleForm(Sample) - Constructor for class org.molgenis.omx.ngs.ui.SampleForm

SAMPLEINPOOL - Static variable in class org.molgenis.omx.ngs.Sample

SAMPLEINPOOL - Static variable in class org.molgenis.omx.ngs.Sample_SampleInPool

SAMPLEINPOOL_INTERNALID - Static variable in class org.molgenis.omx.ngs.Sample

SAMPLEINPOOL_INTERNALID - Static variable in class org.molgenis.omx.ngs.Sample_SampleInPool

SampleJpaMapper - Class in org.molgenis.omx.ngs.db

SampleJpaMapper(Database) - Constructor for class org.molgenis.omx.ngs.db.SampleJpaMapper

Samples1FormController - Class in org.molgenis.ui

Samples1FormController() - Constructor for class org.molgenis.ui.Samples1FormController

Samples1FormController(ScreenController<?>) - Constructor for class org.molgenis.ui.Samples1FormController

Samples2FormController - Class in org.molgenis.ui

Samples2FormController() - Constructor for class org.molgenis.ui.Samples2FormController

Samples2FormController(ScreenController<?>) - Constructor for class org.molgenis.ui.Samples2FormController

SampleSecurityDecorator<E extends Sample> - Class in org.molgenis.omx.ngs.db

TODO add column level security filters

SampleSecurityDecorator(Mapper<E>) - Constructor for class org.molgenis.omx.ngs.db.SampleSecurityDecorator

SampleService - Class in org.molgenis.service

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

SAMPLETYPE - Static variable in class org.molgenis.omx.ngs.Project

saveFileAttachements(List<CapturingKit>, File) - Method in class org.molgenis.omx.ngs.db.CapturingKitJpaMapper

saveFileAttachements(List<Flowcell>, File) - Method in class org.molgenis.omx.ngs.db.FlowcellJpaMapper

saveFileAttachements(List<FlowcellLane>, File) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneJpaMapper

saveFileAttachements(List<Machine>, File) - Method in class org.molgenis.omx.ngs.db.MachineJpaMapper

saveFileAttachements(List<NgsUser>, File) - Method in class org.molgenis.omx.ngs.db.NgsUserJpaMapper

saveFileAttachements(List<PrepKit>, File) - Method in class org.molgenis.omx.ngs.db.PrepKitJpaMapper

saveFileAttachements(List<Project_ProjectAnalist>, File) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistJpaMapper

saveFileAttachements(List<Project>, File) - Method in class org.molgenis.omx.ngs.db.ProjectJpaMapper

saveFileAttachements(List<Sample_SampleInPool>, File) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolJpaMapper

saveFileAttachements(List<SampleBarcode>, File) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeJpaMapper

saveFileAttachements(List<SampleBarcodeType>, File) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeJpaMapper

saveFileAttachements(List<Sample>, File) - Method in class org.molgenis.omx.ngs.db.SampleJpaMapper

SEQTYPE - Static variable in class org.molgenis.omx.ngs.Project

SequencersFormController - Class in org.molgenis.ui

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

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

service(HttpServletRequest, HttpServletResponse) - Method in class org.molgenis.servlet.FrontController

set(Tuple, boolean) - Method in class org.molgenis.omx.ngs.CapturingKit

set(Tuple, boolean) - Method in class org.molgenis.omx.ngs.Flowcell

set(Tuple, boolean) - Method in class org.molgenis.omx.ngs.FlowcellLane

set(Tuple, boolean) - Method in class org.molgenis.omx.ngs.Machine

set(Tuple, boolean) - Method in class org.molgenis.omx.ngs.NgsUser

set(Tuple, boolean) - Method in class org.molgenis.omx.ngs.PrepKit

set(Tuple, boolean) - Method in class org.molgenis.omx.ngs.Project

set(Tuple, boolean) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

set(Tuple, boolean) - Method in class org.molgenis.omx.ngs.Sample

set(Tuple, boolean) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

set(Tuple, boolean) - Method in class org.molgenis.omx.ngs.SampleBarcode

set(Tuple, boolean) - Method in class org.molgenis.omx.ngs.SampleBarcodeType

setArrayFile(String) - Method in class org.molgenis.omx.ngs.Sample

Set the Location of arrayfile for the sample in this lane-barcode.

setArrayId(String) - Method in class org.molgenis.omx.ngs.Sample

Set the ID of the sample on the arrayFile.

setAutoid(Integer) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Set the automatic id field to ensure ordering of mrefs.

setAutoid(Integer) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

Set the automatic id field to ensure ordering of mrefs.

setCapturingKit(CapturingKit) - Method in class org.molgenis.omx.ngs.Sample

Set the Capturing kit used..

setCapturingKit(Integer) - Method in class org.molgenis.omx.ngs.Sample

setCapturingKit_CapturingKitName(String) - Method in class org.molgenis.omx.ngs.Sample

Set a pretty label for cross reference CapturingKit to CapturingKit.Id.

setCapturingKit_Id(Integer) - Method in class org.molgenis.omx.ngs.Sample

Set foreign key for field capturingKit.

setCapturingKitName(String) - Method in class org.molgenis.omx.ngs.CapturingKit

Set the The name of a capturing kit.

setDeclarationNr(String) - Method in class org.molgenis.omx.ngs.Project

Set the The Declaration Nr of a project..

setExternalId(String) - Method in class org.molgenis.omx.ngs.Sample

Set the The name of a sample as known by the customer.

setFlowcell(Flowcell) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set the The flowcell to which this lane belongs.

setFlowcell(Integer) - Method in class org.molgenis.omx.ngs.FlowcellLane

setFlowcell_FlowcellName(String) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set a pretty label for cross reference Flowcell to Flowcell.Id.

setFlowcell_Id(Integer) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set foreign key for field flowcell.

setFlowcellDirection(String) - Method in class org.molgenis.omx.ngs.Flowcell

Set the The direction used to read sequences.

setFlowcellLaneComment(String) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set the Comment about the experiment..

setFlowcellName(String) - Method in class org.molgenis.omx.ngs.Flowcell

Set the The unique name of a flowcell.

setGccAnalysis(Boolean) - Method in class org.molgenis.omx.ngs.Project

Set the Indication if variant calling has to be performed on the experiment..

setGccInstructions(String) - Method in class org.molgenis.omx.ngs.Project

Set the Specific instructions for GCC members for the analysis..

setHomeHtml(String) - Method in class org.molgenis.ngs.plugins.home.Home.HomeModel

setHrefLogo(String) - Method in class org.molgenis.ngs.plugins.header.Header.HeaderModel

setId(Integer) - Method in class org.molgenis.omx.ngs.CapturingKit

Set the automatically generated internal id, only for internal use..

setId(Integer) - Method in class org.molgenis.omx.ngs.Flowcell

Set the automatically generated internal id, only for internal use..

setId(Integer) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set the automatically generated internal id, only for internal use..

setId(Integer) - Method in class org.molgenis.omx.ngs.Machine

Set the automatically generated internal id, only for internal use..

setId(Integer) - Method in class org.molgenis.omx.ngs.NgsUser

Set the automatically generated internal id, only for internal use..

setId(Integer) - Method in class org.molgenis.omx.ngs.PrepKit

Set the automatically generated internal id, only for internal use..

setId(Integer) - Method in class org.molgenis.omx.ngs.Project

Set the automatically generated internal id, only for internal use..

setId(Integer) - Method in class org.molgenis.omx.ngs.Sample

Set the automatically generated internal id, only for internal use..

setId(Integer) - Method in class org.molgenis.omx.ngs.SampleBarcode

Set the automatically generated internal id, only for internal use..

setId(Integer) - Method in class org.molgenis.omx.ngs.SampleBarcodeType

Set the automatically generated internal id, only for internal use..

setInternalId(String) - Method in class org.molgenis.omx.ngs.Sample

Set the The number of a sample as used in-house.

setLabStatus(String) - Method in class org.molgenis.omx.ngs.Sample

Set the Lab status phase of this sample.

setLane(String) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set the The lane number that is unique within a flow cell with a range of 1-8..

setLaneAmount(Integer) - Method in class org.molgenis.omx.ngs.Project

Set the Number of lanes planned in this project.

setMachine(Machine) - Method in class org.molgenis.omx.ngs.Flowcell

Set the The machine used for sequencing.

setMachine(Integer) - Method in class org.molgenis.omx.ngs.Flowcell

setMachine_Id(Integer) - Method in class org.molgenis.omx.ngs.Flowcell

Set foreign key for field machine.

setMachine_MachineName(String) - Method in class org.molgenis.omx.ngs.Flowcell

Set a pretty label for cross reference Machine to Machine.Id.

setMachineName(String) - Method in class org.molgenis.omx.ngs.Machine

Set the The name of a sequence machine.

setPrepKit(PrepKit) - Method in class org.molgenis.omx.ngs.Project

Set the Preparation kit used on the sample for this experiment.

setPrepKit(Integer) - Method in class org.molgenis.omx.ngs.Project

setPrepKit_Id(Integer) - Method in class org.molgenis.omx.ngs.Project

Set foreign key for field prepKit.

setPrepKit_PrepKitName(String) - Method in class org.molgenis.omx.ngs.Project

Set a pretty label for cross reference PrepKit to PrepKit.Id.

setPrepKitName(String) - Method in class org.molgenis.omx.ngs.PrepKit

Set the The name of a prep kit.

setProject(Project) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Set the .

setProject(Integer) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

setProject_Id(Integer) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Set foreign key for field project.

setProject_ProjectName(String) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Set a pretty label for cross reference Project to Project.Id.

setProjectAnalist(List<NgsUser>) - Method in class org.molgenis.omx.ngs.Project

Set the The user which will be responsible for performing the wet-lab activities..

setProjectAnalist(NgsUser...) - Method in class org.molgenis.omx.ngs.Project

setProjectAnalist(NgsUser) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Set the .

setProjectAnalist(Integer) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

setProjectAnalist_Id(Integer...) - Method in class org.molgenis.omx.ngs.Project

setProjectAnalist_Id(List<Integer>) - Method in class org.molgenis.omx.ngs.Project

Set foreign key for field projectAnalist.

setProjectAnalist_Id(Integer) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Set foreign key for field projectAnalist.

setProjectAnalist_UserName(List<String>) - Method in class org.molgenis.omx.ngs.Project

Update the foreign key ProjectAnalist This sets projectAnalist to null until next database transaction.

setProjectAnalist_UserName(String) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

Set a pretty label for cross reference ProjectAnalist to NgsUser.Id.

setProjectAnalistProjectCollection(Collection<Project>) - Method in class org.molgenis.omx.ngs.NgsUser

setProjectComment(String) - Method in class org.molgenis.omx.ngs.Project

Set the The comment of a project..

setProjectCustomer(NgsUser) - Method in class org.molgenis.omx.ngs.Project

Set the The user who ordered the project..

setProjectCustomer(Integer) - Method in class org.molgenis.omx.ngs.Project

setProjectCustomer_Id(Integer) - Method in class org.molgenis.omx.ngs.Project

Set foreign key for field projectCustomer.

setProjectCustomer_UserName(String) - Method in class org.molgenis.omx.ngs.Project

Set a pretty label for cross reference ProjectCustomer to NgsUser.Id.

setProjectId(Project) - Method in class org.molgenis.omx.ngs.Sample

Set the the sample that this sample is part of.

setProjectId(Integer) - Method in class org.molgenis.omx.ngs.Sample

setProjectId_Id(Integer) - Method in class org.molgenis.omx.ngs.Sample

Set foreign key for field projectId.

setProjectId_ProjectName(String) - Method in class org.molgenis.omx.ngs.Sample

Set a pretty label for cross reference ProjectId to Project.Id.

setProjectName(String) - Method in class org.molgenis.omx.ngs.Project

Set the The name of a project.

setProjectPlannedFinishDate(Date) - Method in class org.molgenis.omx.ngs.Project

Set the The date a project is expected to be finished.

setQcDryDate(Date) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set the The date the QcWetUser selected the QcWetMet value.

setQcDryMet(String) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set the Variant calling quality criteria.

setQcDryUser(NgsUser) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set the The user who checked if the quality score of the analysis was met.

setQcDryUser(Integer) - Method in class org.molgenis.omx.ngs.FlowcellLane

setQcDryUser_Id(Integer) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set foreign key for field qcDryUser.

setQcDryUser_UserName(String) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set a pretty label for cross reference QcDryUser to NgsUser.Id.

setQcWetDate(Date) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set the The date the QcWetUser selected the QcWetMet value..

setQcWetMet(String) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set the Quality criteria of the wet lab met.

setQcWetUser(NgsUser) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set the The user who checked if the quality score on the wet-lab was met.

setQcWetUser(Integer) - Method in class org.molgenis.omx.ngs.FlowcellLane

setQcWetUser_Id(Integer) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set foreign key for field qcWetUser.

setQcWetUser_UserName(String) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set a pretty label for cross reference QcWetUser to NgsUser.Id.

setResultFilesDir(String) - Method in class org.molgenis.omx.ngs.Project

Set the File location of the resulting files after analysis occurred (for file download purpose).

setResultShippedDate(Date) - Method in class org.molgenis.omx.ngs.Project

Set the The date the result of the experiment is shipped to the custumor..

setResultShippedDate(String) - Method in class org.molgenis.omx.ngs.Project

Set the The date the result of the experiment is shipped to the custumor..

setResultShippedTo(NgsUser) - Method in class org.molgenis.omx.ngs.Project

Set the Name of the person to which the data has been shipped..

setResultShippedTo(Integer) - Method in class org.molgenis.omx.ngs.Project

setResultShippedTo_Id(Integer) - Method in class org.molgenis.omx.ngs.Project

Set foreign key for field resultShippedTo.

setResultShippedTo_UserName(String) - Method in class org.molgenis.omx.ngs.Project

Set a pretty label for cross reference ResultShippedTo to NgsUser.Id.

setResultShippedUser(NgsUser) - Method in class org.molgenis.omx.ngs.Project

Set the The user who shipped the date..

setResultShippedUser(Integer) - Method in class org.molgenis.omx.ngs.Project

setResultShippedUser_Id(Integer) - Method in class org.molgenis.omx.ngs.Project

Set foreign key for field resultShippedUser.

setResultShippedUser_UserName(String) - Method in class org.molgenis.omx.ngs.Project

Set a pretty label for cross reference ResultShippedUser to NgsUser.Id.

setRows(List<Tuple>) - Method in class org.molgenis.ngs.plugins.worksheet.WorksheetModel

setRun(String) - Method in class org.molgenis.omx.ngs.Flowcell

Set the The run number always use 4 digits (with leading 0's).

setRunDate(Date) - Method in class org.molgenis.omx.ngs.Flowcell

Set the The date the flowcell was run on the machine..

setSample(Sample) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set the Sample.

setSample(Integer) - Method in class org.molgenis.omx.ngs.FlowcellLane

setSample(Sample) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

Set the .

setSample(Integer) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

setSample_Id(Integer) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set foreign key for field sample.

setSample_Id(Integer) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

Set foreign key for field sample.

setSample_InternalId(String) - Method in class org.molgenis.omx.ngs.FlowcellLane

Set a pretty label for cross reference Sample to Sample.Id.

setSample_InternalId(String) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

Set a pretty label for cross reference Sample to Sample.Id.

setSampleAmount(Integer) - Method in class org.molgenis.omx.ngs.Project

Set the Number of samples planned in this project.

setSampleBarcode(SampleBarcode) - Method in class org.molgenis.omx.ngs.Sample

Set the Multiple samples can be on one flowcell using barcodes..

setSampleBarcode(Integer) - Method in class org.molgenis.omx.ngs.Sample

setSampleBarcode_Id(Integer) - Method in class org.molgenis.omx.ngs.Sample

Set foreign key for field sampleBarcode.

setSampleBarcode_SampleBarcodeName(String) - Method in class org.molgenis.omx.ngs.Sample

Set a pretty label for cross reference SampleBarcode to SampleBarcode.Id.

setSampleBarcodeName(String) - Method in class org.molgenis.omx.ngs.SampleBarcode

Set the A concatenated value of Type, Nr and Sequence.

setSampleBarcodeNr(String) - Method in class org.molgenis.omx.ngs.SampleBarcode

Set the The identifier of a barcode given by the supplier.

setSampleBarcodeSequence(String) - Method in class org.molgenis.omx.ngs.SampleBarcode

Set the The nucleotide sequence which forms the barcode.

setSampleBarcodeType(SampleBarcodeType) - Method in class org.molgenis.omx.ngs.SampleBarcode

Set the Type.

setSampleBarcodeType(Integer) - Method in class org.molgenis.omx.ngs.SampleBarcode

setSampleBarcodeType_Id(Integer) - Method in class org.molgenis.omx.ngs.SampleBarcode

Set foreign key for field sampleBarcodeType.

setSampleBarcodeType_SampleBarcodeTypeName(String) - Method in class org.molgenis.omx.ngs.SampleBarcode

Set a pretty label for cross reference SampleBarcodeType to SampleBarcodeType.Id.

setSampleBarcodeTypeName(String) - Method in class org.molgenis.omx.ngs.SampleBarcodeType

Set the The name of a barcode type.

setSampleComment(String) - Method in class org.molgenis.omx.ngs.Sample

Set the Comments about the sample.

setSampleInPool(List<Sample>) - Method in class org.molgenis.omx.ngs.Sample

Set the List of samples inside the pool.

setSampleInPool(Sample...) - Method in class org.molgenis.omx.ngs.Sample

setSampleInPool(Sample) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

Set the .

setSampleInPool(Integer) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

setSampleInPool_Id(Integer...) - Method in class org.molgenis.omx.ngs.Sample

setSampleInPool_Id(List<Integer>) - Method in class org.molgenis.omx.ngs.Sample

Set foreign key for field sampleInPool.

setSampleInPool_Id(Integer) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

Set foreign key for field sampleInPool.

setSampleInPool_InternalId(List<String>) - Method in class org.molgenis.omx.ngs.Sample

Update the foreign key SampleInPool This sets sampleInPool to null until next database transaction.

setSampleInPool_InternalId(String) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

Set a pretty label for cross reference SampleInPool to Sample.Id.

setSampleInPoolSampleCollection(Collection<Sample>) - Method in class org.molgenis.omx.ngs.Sample

setSampleType(String) - Method in class org.molgenis.omx.ngs.Project

Set the Type of sample.

setSeqType(String) - Method in class org.molgenis.omx.ngs.Project

Set the The type of sequencing..

setUserEmail(String) - Method in class org.molgenis.omx.ngs.NgsUser

Set the The email of a user..

setUserGroup(String) - Method in class org.molgenis.omx.ngs.NgsUser

Set the The group a user belongs to..

setUserName(String) - Method in class org.molgenis.omx.ngs.NgsUser

Set the The name of a user.

setUserRole(String) - Method in class org.molgenis.omx.ngs.NgsUser

Set the The role the user has..

showMessage(String) - Method in class org.molgenis.ngs.decorators.ValidateFlowcellValue

SimpleUserLoginPlugin - Class in org.molgenis.ui

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

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

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

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

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.ngs.db.CapturingKitSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.ngs.db.FlowcellSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.ngs.db.MachineSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.ngs.db.NgsUserSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.ngs.db.PrepKitSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.ngs.db.ProjectSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeSecurityDecorator

toList(TupleReader, int) - Method in class org.molgenis.omx.ngs.db.SampleSecurityDecorator

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

toString() - Method in class org.molgenis.omx.ngs.CapturingKit

toString(boolean) - Method in class org.molgenis.omx.ngs.CapturingKit

toString() - Method in class org.molgenis.omx.ngs.Flowcell

toString(boolean) - Method in class org.molgenis.omx.ngs.Flowcell

toString() - Method in class org.molgenis.omx.ngs.FlowcellLane

toString(boolean) - Method in class org.molgenis.omx.ngs.FlowcellLane

toString() - Method in class org.molgenis.omx.ngs.Machine

toString(boolean) - Method in class org.molgenis.omx.ngs.Machine

toString() - Method in class org.molgenis.omx.ngs.NgsUser

toString(boolean) - Method in class org.molgenis.omx.ngs.NgsUser

toString() - Method in class org.molgenis.omx.ngs.PrepKit

toString(boolean) - Method in class org.molgenis.omx.ngs.PrepKit

toString() - Method in class org.molgenis.omx.ngs.Project

toString(boolean) - Method in class org.molgenis.omx.ngs.Project

toString() - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

toString(boolean) - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

toString() - Method in class org.molgenis.omx.ngs.Sample

toString(boolean) - Method in class org.molgenis.omx.ngs.Sample

toString() - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

toString(boolean) - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

toString() - Method in class org.molgenis.omx.ngs.SampleBarcode

toString(boolean) - Method in class org.molgenis.omx.ngs.SampleBarcode

toString() - Method in class org.molgenis.omx.ngs.SampleBarcodeType

toString(boolean) - Method in class org.molgenis.omx.ngs.SampleBarcodeType

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

update(List<E>) - Method in class org.molgenis.ngs.decorators.FlowcellDecorator

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.ngs.db.CapturingKitSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.ngs.db.CapturingKitSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.ngs.db.FlowcellLaneSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.ngs.db.FlowcellSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.ngs.db.FlowcellSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.ngs.db.MachineSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.ngs.db.MachineSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.ngs.db.NgsUserSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.ngs.db.NgsUserSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.ngs.db.PrepKitSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.ngs.db.PrepKitSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.ngs.db.Project_ProjectAnalistSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.ngs.db.ProjectSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.ngs.db.ProjectSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.ngs.db.Sample_SampleInPoolSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.ngs.db.SampleBarcodeTypeSecurityDecorator

update(List<E>) - Method in class org.molgenis.omx.ngs.db.SampleSecurityDecorator

update(TupleReader) - Method in class org.molgenis.omx.ngs.db.SampleSecurityDecorator

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(CapturingKit) - Method in class org.molgenis.service.CapturingKitService

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(FlowcellLane) - Method in class org.molgenis.service.FlowcellLaneService

update(Flowcell) - Method in class org.molgenis.service.FlowcellService

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(Machine) - Method in class org.molgenis.service.MachineService

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

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

update(NgsUser) - Method in class org.molgenis.service.NgsUserService

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(PrepKit) - Method in class org.molgenis.service.PrepKitService

update(Project) - Method in class org.molgenis.service.ProjectService

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

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

update(SampleBarcode) - Method in class org.molgenis.service.SampleBarcodeService

update(SampleBarcodeType) - Method in class org.molgenis.service.SampleBarcodeTypeService

update(Sample) - Method in class org.molgenis.service.SampleService

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

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

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

updateCapturingKit(Integer, CapturingKitController.CapturingKitRequest) - Method in class org.molgenis.controller.CapturingKitController

updateCapturingKitFromForm(Integer, String, CapturingKitController.CapturingKitRequest) - Method in class org.molgenis.controller.CapturingKitController

updateCapturingKitFromFormPost(Integer, CapturingKitController.CapturingKitRequest) - Method in class org.molgenis.controller.CapturingKitController

updateCapturingKitPost(Integer, CapturingKitController.CapturingKitRequest) - Method in class org.molgenis.controller.CapturingKitController

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

updateFlowcell(Integer, FlowcellController.FlowcellRequest) - Method in class org.molgenis.controller.FlowcellController

updateFlowcellFromForm(Integer, String, FlowcellController.FlowcellRequest) - Method in class org.molgenis.controller.FlowcellController

updateFlowcellFromFormPost(Integer, FlowcellController.FlowcellRequest) - Method in class org.molgenis.controller.FlowcellController

updateFlowcellLane(Integer, FlowcellLaneController.FlowcellLaneRequest) - Method in class org.molgenis.controller.FlowcellLaneController

updateFlowcellLaneFromForm(Integer, String, FlowcellLaneController.FlowcellLaneRequest) - Method in class org.molgenis.controller.FlowcellLaneController

updateFlowcellLaneFromFormPost(Integer, FlowcellLaneController.FlowcellLaneRequest) - Method in class org.molgenis.controller.FlowcellLaneController

updateFlowcellLanePost(Integer, FlowcellLaneController.FlowcellLaneRequest) - Method in class org.molgenis.controller.FlowcellLaneController

updateFlowcellPost(Integer, FlowcellController.FlowcellRequest) - Method in class org.molgenis.controller.FlowcellController

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

updateMachine(Integer, MachineController.MachineRequest) - Method in class org.molgenis.controller.MachineController

updateMachineFromForm(Integer, String, MachineController.MachineRequest) - Method in class org.molgenis.controller.MachineController

updateMachineFromFormPost(Integer, MachineController.MachineRequest) - Method in class org.molgenis.controller.MachineController

updateMachinePost(Integer, MachineController.MachineRequest) - Method in class org.molgenis.controller.MachineController

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

updateNgsUser(Integer, NgsUserController.NgsUserRequest) - Method in class org.molgenis.controller.NgsUserController

updateNgsUserFromForm(Integer, String, NgsUserController.NgsUserRequest) - Method in class org.molgenis.controller.NgsUserController

updateNgsUserFromFormPost(Integer, NgsUserController.NgsUserRequest) - Method in class org.molgenis.controller.NgsUserController

updateNgsUserPost(Integer, NgsUserController.NgsUserRequest) - Method in class org.molgenis.controller.NgsUserController

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

updatePrepKit(Integer, PrepKitController.PrepKitRequest) - Method in class org.molgenis.controller.PrepKitController

updatePrepKitFromForm(Integer, String, PrepKitController.PrepKitRequest) - Method in class org.molgenis.controller.PrepKitController

updatePrepKitFromFormPost(Integer, PrepKitController.PrepKitRequest) - Method in class org.molgenis.controller.PrepKitController

updatePrepKitPost(Integer, PrepKitController.PrepKitRequest) - Method in class org.molgenis.controller.PrepKitController

updateProject(Integer, ProjectController.ProjectRequest) - Method in class org.molgenis.controller.ProjectController

updateProjectFromForm(Integer, String, ProjectController.ProjectRequest) - Method in class org.molgenis.controller.ProjectController

updateProjectFromFormPost(Integer, ProjectController.ProjectRequest) - Method in class org.molgenis.controller.ProjectController

updateProjectPost(Integer, ProjectController.ProjectRequest) - Method in class org.molgenis.controller.ProjectController

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

updateSample(Integer, SampleController.SampleRequest) - Method in class org.molgenis.controller.SampleController

updateSampleBarcode(Integer, SampleBarcodeController.SampleBarcodeRequest) - Method in class org.molgenis.controller.SampleBarcodeController

updateSampleBarcodeFromForm(Integer, String, SampleBarcodeController.SampleBarcodeRequest) - Method in class org.molgenis.controller.SampleBarcodeController

updateSampleBarcodeFromFormPost(Integer, SampleBarcodeController.SampleBarcodeRequest) - Method in class org.molgenis.controller.SampleBarcodeController

updateSampleBarcodePost(Integer, SampleBarcodeController.SampleBarcodeRequest) - Method in class org.molgenis.controller.SampleBarcodeController

updateSampleBarcodeType(Integer, SampleBarcodeTypeController.SampleBarcodeTypeRequest) - Method in class org.molgenis.controller.SampleBarcodeTypeController

updateSampleBarcodeTypeFromForm(Integer, String, SampleBarcodeTypeController.SampleBarcodeTypeRequest) - Method in class org.molgenis.controller.SampleBarcodeTypeController

updateSampleBarcodeTypeFromFormPost(Integer, SampleBarcodeTypeController.SampleBarcodeTypeRequest) - Method in class org.molgenis.controller.SampleBarcodeTypeController

updateSampleBarcodeTypePost(Integer, SampleBarcodeTypeController.SampleBarcodeTypeRequest) - Method in class org.molgenis.controller.SampleBarcodeTypeController

updateSampleFromForm(Integer, String, SampleController.SampleRequest) - Method in class org.molgenis.controller.SampleController

updateSampleFromFormPost(Integer, SampleController.SampleRequest) - Method in class org.molgenis.controller.SampleController

updateSamplePost(Integer, SampleController.SampleRequest) - Method in class org.molgenis.controller.SampleController

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

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

UploadFile - Class in org.molgenis.ngs.services

UploadFile(MolgenisContext) - Constructor for class org.molgenis.ngs.services.UploadFile

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.

USEREMAIL - Static variable in class org.molgenis.omx.ngs.NgsUser

USERGROUP - Static variable in class org.molgenis.omx.ngs.NgsUser

USERNAME - Static variable in class org.molgenis.omx.ngs.NgsUser

USERROLE - Static variable in class org.molgenis.omx.ngs.NgsUser

UsersFormController - Class in org.molgenis.ui

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

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

V

validate(File) - Method in class org.molgenis.EntitiesValidatorImpl

validate() - Method in class org.molgenis.omx.ngs.CapturingKit

validate() - Method in class org.molgenis.omx.ngs.Flowcell

validate() - Method in class org.molgenis.omx.ngs.FlowcellLane

validate() - Method in class org.molgenis.omx.ngs.Machine

validate() - Method in class org.molgenis.omx.ngs.NgsUser

validate() - Method in class org.molgenis.omx.ngs.PrepKit

validate() - Method in class org.molgenis.omx.ngs.Project

validate() - Method in class org.molgenis.omx.ngs.Project_ProjectAnalist

validate() - Method in class org.molgenis.omx.ngs.Sample

validate() - Method in class org.molgenis.omx.ngs.Sample_SampleInPool

validate() - Method in class org.molgenis.omx.ngs.SampleBarcode

validate() - Method in class org.molgenis.omx.ngs.SampleBarcodeType

ValidateFlowcellValue<E extends Flowcell> - Class in org.molgenis.ngs.decorators

Generic decorator for NGS values.

ValidateFlowcellValue(String, String) - Constructor for class org.molgenis.ngs.decorators.ValidateFlowcellValue

ValueController - Class in org.molgenis.controller

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

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

ViewFile - Class in org.molgenis.ngs.services

ViewFile(MolgenisContext) - Constructor for class org.molgenis.ngs.services.ViewFile

viewResolver() - Method in class org.molgenis.ngs.WebAppConfig

Enable spring freemarker viewresolver.

W

WebAppConfig - Class in org.molgenis.ngs

WebAppConfig() - Constructor for class org.molgenis.ngs.WebAppConfig

WebAppConfig.RootController - Class in org.molgenis.ngs

Redirects '/' to the Home plugin

WebAppConfig.RootController() - Constructor for class org.molgenis.ngs.WebAppConfig.RootController

WebAppDatabasePopulator - Class in org.molgenis.ngs

WebAppDatabasePopulator() - Constructor for class org.molgenis.ngs.WebAppDatabasePopulator

WebAppInitializer - Class in org.molgenis.ngs

WebAppInitializer() - Constructor for class org.molgenis.ngs.WebAppInitializer

Worksheet - Class in org.molgenis.ngs.plugins.worksheet

Worksheet(String, ScreenController<?>) - Constructor for class org.molgenis.ngs.plugins.worksheet.Worksheet

WorksheetModel - Class in org.molgenis.ngs.plugins.worksheet

WorksheetModel(List<Tuple>) - Constructor for class org.molgenis.ngs.plugins.worksheet.WorksheetModel

WorksheetPlugin - Class in org.molgenis.ui

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

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

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