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

AbstractJavaDataSetRegistrationDropboxV2 - Class in ch.systemsx.cisd.etlserver.registrator.api.v2

An abstract superclass for V2 dropboxes implemented in java

AbstractJavaDataSetRegistrationDropboxV2() - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.AbstractJavaDataSetRegistrationDropboxV2

AbstractTransactionState<T extends ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation> - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

Abstract superclass for the states a DataSetRegistrationTransaction can be in.

AbstractTransactionState(DataSetRegistrationTransaction<T>) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AbstractTransactionState

AbstractTransactionState.LiveTransactionRollbackDelegate - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

Rollback stack delegate that checks whether the given filesystem is accessible before letting the rollback continue.

addAttachment(String, String, String, byte[]) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IExperimentUpdatable

Add a new attachment to this sample.

addAttachment(String, String, String, byte[]) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Sample

addAttachment(String, String, String, byte[]) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IProject

Add a new attachment to this sample.

addAttachment(String, String, String, byte[]) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.ISample

Add a new attachment to this sample.

addEntity(IMetaprojectContent) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IMetaproject

add assignments to this metaproject

addEntity(IMetaprojectContent) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Metaproject

addTerm(IVocabularyTerm) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Vocabulary

addTerm(IVocabularyTerm) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IVocabulary

adds a vocabulary term to the dictionary.

assignRoleToSpace(RoleWithHierarchy.RoleCode, ISpaceImmutable, List<String>, List<String>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

assignRoleToSpace(RoleWithHierarchy.RoleCode, ISpaceImmutable, List<String>, List<String>) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Give users and/or groups access privileges to a space.

assignRoleToSpace(RoleWithHierarchy.RoleCode, ISpaceImmutable, List<String>, List<String>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

AttachmentImmutable - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

AttachmentImmutable(Attachment) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AttachmentImmutable

AuthorizationGroupImmutable - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

AuthorizationGroupImmutable(AuthorizationGroup) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationGroupImmutable

AuthorizationHelper - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

AuthorizationHelper() - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationHelper

AuthorizationHelper.EntityKind - Enum in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

AuthorizationService - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

AuthorizationService(IEncapsulatedOpenBISService) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationService

C

canGetContainedSamples() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

ch.systemsx.cisd.etlserver.registrator.api.v2 - package ch.systemsx.cisd.etlserver.registrator.api.v2

ch.systemsx.cisd.etlserver.registrator.api.v2.impl - package ch.systemsx.cisd.etlserver.registrator.api.v2.impl

checkExists() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExperimentImmutable

Throw an exception if the sample does not exist

checkExists() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MaterialImmutable

Throw an exception if the sample does not exist

checkExists() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ProjectImmutable

Throw an exception if the project does not exist

checkExists() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

Throw an exception if the sample does not exist

checkExists() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SpaceImmutable

Throw an exception if the project does not exist

cleanAfterRegistrationIfNecessary() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.JythonDataSetRegistrationService

close() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

commit() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

Commit the transaction.

commit() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonDataSetRegistrationServiceV2

Commit any scheduled changes.

COMMIT_TRANSACTION_FUNCTION_NAME - ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.JythonHookFunction

The name of the function called after successful transaction commit.

containsTerm(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyImmutable

ConversionUtils - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

Utility methods to convert transaction-layer DTOs to objects accepted by openBIS.

ConversionUtils() - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ConversionUtils

convertToDataSetBatchUpdatesDTO(DataSetUpdatable) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ConversionUtils

convertToDataSetUpdatesDTO(DataSetUpdatable) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ConversionUtils

convertToExperimentUpdateDTO(ExperimentUpdatable) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ConversionUtils

convertToMaterialUpdateDTO(Material) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ConversionUtils

convertToMetaprojectsImmutable(Collection<Metaproject>) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ConversionUtils

convertToMetaprojectUpdatesDTO(Metaproject) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ConversionUtils

convertToNewContainerDataSet(DataSetRegistrationDetails<?>, String) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ConversionUtils

convertToNewExperiment(Experiment) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ConversionUtils

convertToNewExternalData(DataSetRegistrationDetails<?>, String, StorageFormat, String) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ConversionUtils

convertToNewLinkDataSet(DataSetRegistrationDetails<?>, String) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ConversionUtils

convertToNewMaterial(Material) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ConversionUtils

convertToNewMetaproject(Metaproject) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ConversionUtils

convertToNewProject(Project) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ConversionUtils

convertToNewSample(Sample) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ConversionUtils

convertToNewSpace(Space) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ConversionUtils

convertToProjectUpdateDTO(Project) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ConversionUtils

convertToSampleUpdateDTO(Sample) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ConversionUtils

createDataSetRegistrationService(DataSetFile, DataSetInformation, IDelegatedActionWithResult<Boolean>, ITopLevelDataSetRegistratorDelegate) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JavaTopLevelDataSetHandlerV2

Create a V2 registration service.

createDataSetRegistrationService(DataSetFile, DataSetInformation, IDelegatedActionWithResult<Boolean>, ITopLevelDataSetRegistratorDelegate) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

Create a registration service that includes a python interpreter (we need the interpreter in the service so we can use it in error handling).

createJythonDataSetRegistrationServiceV2(DataSetFile, DataSetInformation, IDelegatedActionWithResult<Boolean>, ITopLevelDataSetRegistratorDelegate, IJythonInterpreter, TopLevelDataSetRegistratorGlobalState) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

Create a Jython registration service that includes access to the interpreter.

createMetaproject(String, String, String) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Metaproject

createNewDataSet() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewDataSet() - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Create a new data set for registration in openBIS.

createNewDataSet() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewDataSet(DataSetRegistrationDetails<T>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewDataSet(IDataSetRegistrationDetailsFactory<T>, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewDataSet(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewDataSet(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Create a new data set with the specified code.

createNewDataSet(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewDataSet(String, DataSetKind) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewDataSet(String, DataSetKind) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

createNewDataSet(String, DataSetKind) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewDataSet(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewDataSet(String, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Create a new data set with the specified type and code.

createNewDataSet(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewDataSet(String, String, DataSetKind) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewDataSet(String, String, DataSetKind) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

createNewDataSet(String, String, DataSetKind) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewDirectory(IDataSet, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewDirectory(IDataSet, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Create a new directory and return the path.

createNewDirectory(IDataSet, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewExperiment(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewExperiment(String, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Create a new experiment to register with the openBIS AS.

createNewExperiment(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewFile(IDataSet, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewFile(IDataSet, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Create a new empty file and return the path.

createNewFile(IDataSet, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewFile(IDataSet, String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewFile(IDataSet, String, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Create a new empty file and return the path.

createNewFile(IDataSet, String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewLink(IDataSet, String, String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewLink(IDataSet, String, String, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Create a new symbolic link and return the path.

createNewLink(IDataSet, String, String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewMaterial(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewMaterial(String, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Create a new material to register with the openBIS AS.

createNewMaterial(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewMetaproject(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewMetaproject(String, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Creates the new metaproject for the current user.

createNewMetaproject(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewMetaproject(String, String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewMetaproject(String, String, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Creates the new metaproject for the specified user.

createNewMetaproject(String, String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewProject(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewProject(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Create a new project to register with the openBIS AS.

createNewProject(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewProjectSampleWithGeneratedCode(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewProjectSampleWithGeneratedCode(String, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Create a new project sample to register with the openBIS AS.

createNewProjectSampleWithGeneratedCode(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewSample(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewSample(String, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Create a new sample to register with the openBIS AS.

createNewSample(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewSampleWithGeneratedCode(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewSampleWithGeneratedCode(String, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Create a new sample to register with the openBIS AS.

createNewSampleWithGeneratedCode(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewSpace(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewSpace(String, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Create a new space to register with the openBIS AS.

createNewSpace(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createNewVocabularyTerm() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

createNewVocabularyTerm() - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Creates a new vocabulary term, which has to be assigned to a IVocabulary.

createNewVocabularyTerm() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

createRegistrationDetails() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.ProgrammableDropboxObjectFactory

Factory method that creates a new registration details object.

D

DATA_SET - ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationHelper.EntityKind

dataSet - Variable in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

DataSet<T extends ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation> - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

A generic class that represents a data set for the registration API.

DataSet(DataSetRegistrationDetails<? extends T>, File, IEncapsulatedOpenBISService) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

DataSetImmutable - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

A data set that has already been stored in openBIS.

DataSetImmutable(AbstractExternalData, IEncapsulatedBasicOpenBISService) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

DataSetRegistrationServiceV2<T extends ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation> - Class in ch.systemsx.cisd.etlserver.registrator.api.v2

DataSetRegistrationServiceV2(AbstractProgrammableTopLevelDataSetHandler<T>, DataSetFile, DataSetInformation, IDelegatedActionWithResult<Boolean>, ITopLevelDataSetRegistratorDelegate) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationServiceV2

DataSetRegistrationTransaction<T extends ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation> - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

The implementation of a transaction.

DataSetRegistrationTransaction(File, File, File, DataSetRegistrationService<T>, IDataSetRegistrationDetailsFactory<T>, String) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

DataSetRegistrationTransactionV2Delegate - Class in ch.systemsx.cisd.etlserver.registrator.api.v2

DataSetRegistrationTransactionV2Delegate(DataSetRegistrationTransaction<?>) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

DataSetUpdatable - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

A data set already existing in the openBIS database, that is changed as part of the registration process of another data set.

DataSetUpdatable(DataSetImmutable) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetUpdatable

DataSetUpdatable(AbstractExternalData, IEncapsulatedBasicOpenBISService) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetUpdatable

deleteFile(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

DID_ENCOUNTER_SECONDARY_TRANSACTION_ERRORS_FUNCTION_NAME - ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.JythonHookFunction

The name of the function called when secondary transactions, DynamicTransactionQuery objects, fail.

didEntityOperationsSucceeded(TechId) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

didRollbackStorageAlgorithmRunner(DataSetStorageAlgorithmRunner<T>, Throwable, IDataSetOnErrorActionDecision.ErrorType) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

Delegate method called by the DataSetStorageAlgorithmRunner.

doesUserHaveRole(String, String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationService

E

equals(Object) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

equals(Object) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExperimentImmutable

equals(Object) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MaterialImmutable

equals(Object) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ProjectImmutable

equals(Object) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

error(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDSSRegistrationLogger

error(String, Throwable) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDSSRegistrationLogger

executeJythonScript(DataSetFile, String, JythonTopLevelDataSetHandlerV2.JythonDataSetRegistrationService<T>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

EXPERIMENT - ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationHelper.EntityKind

ExperimentImmutable - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

ExperimentImmutable(Experiment) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExperimentImmutable

ExternalDataManagementSystem - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

ExternalDataManagementSystem(ExternalDataManagementSystem) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExternalDataManagementSystem

ExternalDataManagementSystemImmutable - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

ExternalDataManagementSystemImmutable(ExternalDataManagementSystem) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExternalDataManagementSystemImmutable

F

FACTORY_VARIABLE_NAME - Static variable in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

filterToVisible(IEncapsulatedOpenBISService, String, List<T>, IMapper<T, String>, AuthorizationHelper.EntityKind) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationHelper

filterToVisibleDatasets(String, List<IDataSetImmutable>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationService

filterToVisibleExperiments(String, List<IExperimentImmutable>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationService

filterToVisibleSamples(String, List<ISampleImmutable>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationService

findRollbackStacks(File) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

G

getAddress() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExternalDataManagementSystemImmutable

getAddressType() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExternalDataManagementSystemImmutable

getAllPropertyCodes() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getAllPropertyCodes() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getAttachmentContent(IExperimentImmutable, String, Integer) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getAttachmentContent(IExperimentImmutable, String, Integer) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Returns an experiment attachment content.

getAttachmentContent(IExperimentImmutable, String, Integer) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getAttachmentContent(IProjectImmutable, String, Integer) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getAttachmentContent(IProjectImmutable, String, Integer) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Returns a project attachment content.

getAttachmentContent(IProjectImmutable, String, Integer) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getAttachmentContent(ISampleImmutable, String, Integer) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getAttachmentContent(ISampleImmutable, String, Integer) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Returns a sample attachment content.

getAttachmentContent(ISampleImmutable, String, Integer) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getAuthorizationGroup() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.RoleAssignmentImmutable

getAuthorizationService() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getAuthorizationService() - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

getAuthorizationService() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getChildrenDataSets() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getChildrenDataSets() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getClass(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.ProgrammableDropboxObjectFactory

Returns the Java class for the given class name.

getCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationGroupImmutable

getCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExternalDataManagementSystemImmutable

getCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MaterialImmutable

getCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ProjectImmutable

getCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

getCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyImmutable

getCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyTermImmutable

getContainedDataSetCodes() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getContainedDataSetCodes() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getContainedSamples() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

getContainerDataSet() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getContainerDataSet() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getContainerDataSets() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getContainerDataSets() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getDatabaseQuery(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getDatabaseQuery(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Gets a database query object for the data source with the specified name.

getDatabaseQuery(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getDataSet(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getDataSet(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Deprecated.

Use SearchService.getDataSet(String)

getDataSet(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getDataSet(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

getDataSetCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getDataSetCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getDataSetForUpdate(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getDataSetForUpdate(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Get a data set from the openBIS AS for the purpose of modifying it.

getDataSetForUpdate(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getDataSetKind() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getDataSetKind() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getDataSets() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MetaprojectAssignments

getDataSetStagingFolder() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getDataSetType() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getDataSetType() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getDataSetTypeWithPropertyTypes() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getDataSetTypeWithPropertyTypes() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getDescription() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AttachmentImmutable

getDescription() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationGroupImmutable

getDescription() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MetaprojectImmutable

getDescription() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ProjectImmutable

getDescription() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SpaceImmutable

getDescription() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyImmutable

getDescription() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyTermImmutable

getEntityId() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getEntityId() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getEntityId() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExperimentImmutable

getEntityId() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MaterialImmutable

getEntityId() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

getEntityTypeCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.PropertyAssignmentImmutable

getExperiment() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getExperiment() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getExperiment() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExperimentImmutable

getExperiment() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

getExperiment(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getExperiment(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Deprecated.

Use SearchService.getExperiment(String)

getExperiment(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getExperiment(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

getExperimentByIdentifier(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

getExperimentByPermId(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

getExperimentForUpdate(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getExperimentForUpdate(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Get an experiment from the openBIS AS for the purpose of modifying it.

getExperimentForUpdate(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getExperimentIdentifier() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExperimentImmutable

getExperiments() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MetaprojectAssignments

getExperimentType() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExperimentImmutable

getExternalCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getExternalCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getExternalData() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetUpdatable

Only visible to internal implementation classes.

getExternalDataManagementSystem() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getExternalDataManagementSystem() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getExternalDataManagementSystem(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getExternalDataManagementSystem(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Get an external data management system from the openBIS AS.

getExternalDataManagementSystem(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getFileFormatType() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getFileFormatType() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getFileName() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AttachmentImmutable

getGlobalState() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getGlobalState() - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

getGlobalState() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getId() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationGroupImmutable

getId() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExperimentImmutable

getId() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ProjectImmutable

getId() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

getIdentifier() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SpaceImmutable

getIncoming() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getIncoming() - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Returns the file representing the logical incoming file.

getIncoming() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getIncomingDataSetFile() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getInterpreter() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.JythonDataSetRegistrationService

getInterpreterFromService(DataSetRegistrationService<T>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

getLabel() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExternalDataManagementSystemImmutable

getLabel() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyTermImmutable

getLogger() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getLogger() - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Returns the logger object that logs messages to openbis operation log and data store server registration logs.

getLogger() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getMaterial() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MaterialImmutable

getMaterial(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getMaterial(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Deprecated.

Use SearchService.getMaterial(String)

getMaterial(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getMaterial(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

getMaterial(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getMaterial(String, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Get a material from the openBIS AS.

getMaterial(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getMaterial(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

getMaterialForUpdate(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getMaterialForUpdate(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Get a material from the openBIS AS for the purpose of modifying it.

getMaterialForUpdate(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getMaterialForUpdate(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getMaterialForUpdate(String, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Get a material from the openBIS AS for the purpose of modifying it.

getMaterialForUpdate(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getMaterialIdentifier() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MaterialImmutable

getMaterials() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MetaprojectAssignments

getMaterialType() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MaterialImmutable

getMetaproject() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MetaprojectAssignments

getMetaproject() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MetaprojectImmutable

getMetaproject(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getMetaproject(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Only allowed when the user is available.

getMetaproject(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getMetaproject(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

getMetaproject(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getMetaproject(String, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Only allowed when the user is not available.

getMetaproject(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getMetaprojectAssignments(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

getModificationDate() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExperimentImmutable

getName() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MetaprojectImmutable

getOpenBisServiceSessionToken() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getOpenBisServiceSessionToken() - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Returns the currently used session token by the openBIS service

getOpenBisServiceSessionToken() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getOrderInContainer(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getOrderInContainer(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getOrdinal() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyTermImmutable

getOwnerId() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MetaprojectImmutable

getParentDatasets() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getParentDatasets() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getParentSampleIdentifiers() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

getPermId() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExperimentImmutable

getPermId() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ProjectImmutable

getPermId() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

getPositionInForms() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.PropertyAssignmentImmutable

getProject() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ProjectImmutable

getProject() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

getProject(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getProject(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Deprecated.

Use SearchService.getProject(String)

getProject(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getProject(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

getProjectByIdentifier(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

getProjectByPermId(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

getProjectForUpdate(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getProjectForUpdate(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Get an project from the openBIS AS for the purpose of modifying it.

getProjectForUpdate(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getProjectIdentifier() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ProjectImmutable

getPropertyTypeCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.PropertyAssignmentImmutable

getPropertyTypeDescription() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.PropertyAssignmentImmutable

getPropertyTypeLabel() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.PropertyAssignmentImmutable

getPropertyValue(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getPropertyValue(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getPropertyValue(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExperimentImmutable

getPropertyValue(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MaterialImmutable

getPropertyValue(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

getRecoveryHookAdaptor(File) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JavaTopLevelDataSetHandlerV2

getRecoveryHookAdaptor(File) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

getRegistrationContext() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getRegistrationContext() - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Return a registration context object which can be used to store information that needs to be accessed through the registration process.

getRegistrationContext() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getRegistrationDate() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExperimentImmutable

getRegistrationDetails() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getRoleSetCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.RoleAssignmentImmutable

getSample() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getSample() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getSample() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

getSample(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getSample(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Deprecated.

Use SearchService.getSample(String)

getSample(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getSample(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

getSampleByIdentifier(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

getSampleByPermId(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

getSampleForUpdate(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getSampleForUpdate(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Get a sample from the openBIS AS for the purpose of modifying it.

getSampleForUpdate(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getSampleIdentifier() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

getSamples() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MetaprojectAssignments

getSampleType() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

getScriptName() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.PropertyAssignmentImmutable

getSearchService() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getSearchService() - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Retrieve the search service for this transaction.

getSearchService() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getSearchServiceFilteredForUser(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getSearchServiceFilteredForUser(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Retrieve the search service for this transaction.

getSearchServiceFilteredForUser(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getSearchServiceUnfiltered() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getSearchServiceUnfiltered() - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Retrieve the search service for this transaction.

getSearchServiceUnfiltered() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getSection() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.PropertyAssignmentImmutable

getServerInformation() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getServerInformation() - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Returns information about the openBIS server.

getServerInformation() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getSpace() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.RoleAssignmentImmutable

getSpace() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

getSpace() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SpaceImmutable

getSpace(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getSpace(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Deprecated.

Use SearchService.getSpace(String)

getSpace(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getSpace(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

getSpaceAdminUserId() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Space

getSpaceCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ProjectImmutable

getSpaceCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SpaceImmutable

getSpeedHint() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

getSpeedHint() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

getStorageRecoveryManager() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getTerms() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Vocabulary

getTerms() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyImmutable

getThinDataSet(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

getTitle() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AttachmentImmutable

getTransaction() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonDataSetRegistrationServiceV2

getUpdates() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetUpdatable

getUrl() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyTermImmutable

getUrlTemplate() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExternalDataManagementSystemImmutable

getUrlTemplate() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyImmutable

getUser() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.RoleAssignmentImmutable

getUserId() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getUserId() - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Get the id of the user on whose behalf this registration transaction is performed.

getUserId() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getUserId() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.UserImmutable

getV2DropboxProgram(DataSetRegistrationService<T>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JavaTopLevelDataSetHandlerV2

getV2DropboxProgram(DataSetRegistrationService<T>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

getVersion() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AttachmentImmutable

getVocabulary() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyImmutable

getVocabulary(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getVocabulary(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Deprecated.

Use SearchService.getVocabulary(String)

getVocabulary(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getVocabulary(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

getVocabularyForUpdate(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

getVocabularyForUpdate(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Get the vocabulary with given code

getVocabularyForUpdate(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

getVocabularyTerm() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyTermImmutable

H

handleDataSet(DataSetFile, DataSetRegistrationService<T>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JavaTopLevelDataSetHandlerV2

handleDataSet(DataSetFile, DataSetRegistrationService<T>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

hashCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExperimentImmutable

hashCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ProjectImmutable

hashCode() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

hasRecoveryMarkerFile(File) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JavaTopLevelDataSetHandlerV2

hasRecoveryMarkerFile(File) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

I

IDataSet - Interface in ch.systemsx.cisd.etlserver.registrator.api.v2

IDataSetRegistrationTransactionV2 - Interface in ch.systemsx.cisd.etlserver.registrator.api.v2

IDataSetUpdatable - Interface in ch.systemsx.cisd.etlserver.registrator.api.v2

IDSSRegistrationLogger - Interface in ch.systemsx.cisd.etlserver.registrator.api.v2

Logging interface exposed through a dropbox api.

IExperiment - Interface in ch.systemsx.cisd.etlserver.registrator.api.v2

Interface to specify an experiment to be created.

IExperimentUpdatable - Interface in ch.systemsx.cisd.etlserver.registrator.api.v2

Interface to specify an experiment to be modified.

IExternalDataManagementSystem - Interface in ch.systemsx.cisd.etlserver.registrator.api.v2

IJavaDataSetRegistrationDropboxV2 - Interface in ch.systemsx.cisd.etlserver.registrator.api.v2

The interface that V2 dropboxes must implement.

IMaterial - Interface in ch.systemsx.cisd.etlserver.registrator.api.v2

IMetaproject - Interface in ch.systemsx.cisd.etlserver.registrator.api.v2

INCOMING_DATA_SET_VARIABLE_NAME - Static variable in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

The name of the local variable under which the incoming directory is made available to the script.

info(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDSSRegistrationLogger

info(String, Throwable) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDSSRegistrationLogger

IProject - Interface in ch.systemsx.cisd.etlserver.registrator.api.v2

Interface to specify an experiment to be modified or created.

ISample - Interface in ch.systemsx.cisd.etlserver.registrator.api.v2

isChosenFromList() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyImmutable

isCommitted() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AbstractTransactionState

isCommitted() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

isCommittedOrRolledback() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

isContainedDataSet() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

isContainedDataSet() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

isContainerDataSet() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

isContainerDataSet() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

isDynamic() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.PropertyAssignmentImmutable

isExistingExperiment() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExperimentImmutable

isExistingMaterial() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MaterialImmutable

isExistingMetaproject() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MetaprojectImmutable

isExistingProject() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ProjectImmutable

isExistingSample() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

isExistingSpace() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SpaceImmutable

isInternalNamespace() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyImmutable

Deprecated.

use VocabularyImmutable.isManagedInternally()

isLinkDataSet() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

isLinkDataSet() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

isManaged() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.PropertyAssignmentImmutable

isManagedInternally() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyImmutable

isMandatory() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.PropertyAssignmentImmutable

isMeasuredData() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

isMeasuredData() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

isNoFileDataSet() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

isNoFileDataSet() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

isOpenBIS() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ExternalDataManagementSystemImmutable

ISpace - Interface in ch.systemsx.cisd.etlserver.registrator.api.v2

isPostRegistered() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

isPostRegistered() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetImmutable

isRecoveryPending() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AbstractTransactionState

isRecoveryPending() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

isRetryFunctionDefined() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.AbstractJavaDataSetRegistrationDropboxV2

A retry function is always defined.

isRetryFunctionDefined() - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IJavaDataSetRegistrationDropboxV2

Is a function defined that can be used to check if a failed registration should be retried? Primarily for use implementations of this interface that dispatch to dynamic languages.

isRetryFunctionDefined() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonAsJavaDataSetRegistrationDropboxV2Wrapper

isRolledback() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AbstractTransactionState

isRolledback() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

IVocabulary - Interface in ch.systemsx.cisd.etlserver.registrator.api.v2

IVocabularyTerm - Interface in ch.systemsx.cisd.etlserver.registrator.api.v2

J

JavaTopLevelDataSetHandlerV2<T extends ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation> - Class in ch.systemsx.cisd.etlserver.registrator.api.v2

JavaTopLevelDataSetHandlerV2(TopLevelDataSetRegistratorGlobalState) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.JavaTopLevelDataSetHandlerV2

JYTHON_VERSION - Static variable in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

JythonAsJavaDataSetRegistrationDropboxV2Wrapper - Class in ch.systemsx.cisd.etlserver.registrator.api.v2

JythonAsJavaDataSetRegistrationDropboxV2Wrapper(IJythonInterpreter) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonAsJavaDataSetRegistrationDropboxV2Wrapper

JythonDataSetRegistrationService(AbstractProgrammableTopLevelDataSetHandler<T>, DataSetFile, DataSetInformation, IDelegatedActionWithResult<Boolean>, ITopLevelDataSetRegistratorDelegate, IJythonInterpreter, TopLevelDataSetRegistratorGlobalState) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.JythonDataSetRegistrationService

JythonDataSetRegistrationServiceV2<T extends ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation> - Class in ch.systemsx.cisd.etlserver.registrator.api.v2

JythonDataSetRegistrationServiceV2(AbstractProgrammableTopLevelDataSetHandler<T>, DataSetFile, DataSetInformation, IDelegatedActionWithResult<Boolean>, ITopLevelDataSetRegistratorDelegate, IJythonInterpreter, TopLevelDataSetRegistratorGlobalState) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonDataSetRegistrationServiceV2

jythonInterpreterFactory - Variable in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

JythonTopLevelDataSetHandlerV2<T extends ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation> - Class in ch.systemsx.cisd.etlserver.registrator.api.v2

A top-level data set handler that runs a python (jython) script to register data sets.

JythonTopLevelDataSetHandlerV2(TopLevelDataSetRegistratorGlobalState) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

Constructor.

JythonTopLevelDataSetHandlerV2.JythonDataSetRegistrationService<T extends ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation> - Class in ch.systemsx.cisd.etlserver.registrator.api.v2

JythonTopLevelDataSetHandlerV2.JythonHookFunction - Enum in ch.systemsx.cisd.etlserver.registrator.api.v2

JythonTopLevelDataSetHandlerV2.ProgrammableDropboxObjectFactory<T extends ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation> - Class in ch.systemsx.cisd.etlserver.registrator.api.v2

L

listAllMaterials(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

listAttachments(IExperimentImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

listAttachments(IExperimentImmutable) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Returns a list of experiment attachments with all versions.

listAttachments(IExperimentImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

listAttachments(IProjectImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

listAttachments(IProjectImmutable) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Returns a list of project attachments with all versions.

listAttachments(IProjectImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

listAttachments(ISampleImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

listAttachments(ISampleImmutable) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Returns a list of sample attachments with all versions.

listAttachments(ISampleImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

listAuthorizationGroups() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationService

listAuthorizationGroupsForUser(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationService

listExperiments(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

listMaterials(MaterialIdentifierCollection) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

listMetaprojects() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

listMetaprojectsForEntities(Collection<? extends IMetaprojectContent>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

listMetaprojectsForEntity(IMetaprojectContent) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

listPropertiesDefinitionsForDataSetType(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

listPropertiesDefinitionsForExperimentType(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

listPropertiesDefinitionsForMaterialType(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

listPropertiesDefinitionsForSampleType(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

listRoleAssignments() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationService

listUsersForAuthorizationGroup(IAuthorizationGroupImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationService

LiveTransactionRollbackDelegate(File) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AbstractTransactionState.LiveTransactionRollbackDelegate

logDssRegistrationResult() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonDataSetRegistrationServiceV2

logInfo(Object) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

Write something to the operation log.

M

makeDataSetMutable(IDataSetImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

makeDataSetMutable(IDataSetImmutable) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Given an immutable data set, make it mutable.

makeDataSetMutable(IDataSetImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

makeExperimentMutable(IExperimentImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

makeExperimentMutable(IExperimentImmutable) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Given an immutable experiment, make it mutable.

makeExperimentMutable(IExperimentImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

makeMaterialMutable(IMaterialImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

makeMaterialMutable(IMaterialImmutable) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Given an immutable material, make it mutable.

makeMaterialMutable(IMaterialImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

makeProjectMutable(IProjectImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

makeProjectMutable(IProjectImmutable) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Given an immutable project, make it mutable.

makeProjectMutable(IProjectImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

makeSampleMutable(ISampleImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

makeSampleMutable(ISampleImmutable) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Given an immutable sample, make it mutable.

makeSampleMutable(ISampleImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

markReadyForRecovery(DataSetStorageAlgorithmRunner<T>, Throwable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

Material - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

Material(Material) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Material

Material(String, String) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Material

MaterialImmutable - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

MaterialImmutable(Material) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MaterialImmutable

MaterialImmutable(Material, boolean) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MaterialImmutable

Metaproject - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

Metaproject(Metaproject) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Metaproject

metaprojectAssignments - Variable in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MetaprojectAssignments

MetaprojectAssignments - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

MetaprojectAssignments(MetaprojectAssignments, IEncapsulatedBasicOpenBISService) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MetaprojectAssignments

MetaprojectImmutable - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

The read-only version of metaproject

MetaprojectImmutable(Metaproject) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MetaprojectImmutable

MetaprojectImmutable(Metaproject, boolean) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MetaprojectImmutable

moveFile(String, IDataSet) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

moveFile(String, IDataSet) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Move a file from into the root of a data set.

moveFile(String, IDataSet) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

moveFile(String, IDataSet, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

moveFile(String, IDataSet, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Move a file to a specified location in a data set.

moveFile(String, IDataSet, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

N

name - Variable in enum ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.JythonHookFunction

O

operationLog - Static variable in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

operationLog - Static variable in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonAsJavaDataSetRegistrationDropboxV2Wrapper

P

parent - Variable in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AbstractTransactionState

POST_REGISTRATION_FUNCTION_NAME - ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.JythonHookFunction

The name of the function called just after successful registration of datasets in application server.

POST_STORAGE_FUNCTION_NAME - ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.JythonHookFunction

The name of the function called after successful transaction commit.

postMetadataRegistration(DataSetRegistrationContext) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.AbstractJavaDataSetRegistrationDropboxV2

Default implementation is to do nothing.

postMetadataRegistration(DataSetRegistrationContext) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IJavaDataSetRegistrationDropboxV2

Invoked just after the metadata is registered with the openBIS AS.

postMetadataRegistration(DataSetRegistrationContext) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonAsJavaDataSetRegistrationDropboxV2Wrapper

postStorage(DataSetRegistrationContext) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.AbstractJavaDataSetRegistrationDropboxV2

Default implementation is to do nothing.

postStorage(DataSetRegistrationContext) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IJavaDataSetRegistrationDropboxV2

Invoked after the data has been stored in its final location on the file system and the storage has been confirmed with the AS.

postStorage(DataSetRegistrationContext) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonAsJavaDataSetRegistrationDropboxV2Wrapper

PRE_REGISTRATION_FUNCTION_NAME - ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.JythonHookFunction

The name of the function called just before registration of datasets in application server.

preMetadataRegistration(DataSetRegistrationContext) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.AbstractJavaDataSetRegistrationDropboxV2

Default implementation is to do nothing.

preMetadataRegistration(DataSetRegistrationContext) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IJavaDataSetRegistrationDropboxV2

Invoked just before the metadata is registered with the openBIS AS.

preMetadataRegistration(DataSetRegistrationContext) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonAsJavaDataSetRegistrationDropboxV2Wrapper

process(IDataSetRegistrationTransactionV2) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IJavaDataSetRegistrationDropboxV2

Invoked when new data is found in the incoming folder.

process(IDataSetRegistrationTransactionV2) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonAsJavaDataSetRegistrationDropboxV2Wrapper

PROCESS_FUNCTION - ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.JythonHookFunction

The name of the v2 process function, that is executed during the registration.

PROGRAM_CLASS_KEY - Static variable in class ch.systemsx.cisd.etlserver.registrator.api.v2.JavaTopLevelDataSetHandlerV2

ProgrammableDropboxObjectFactory(AbstractOmniscientTopLevelDataSetRegistrator.OmniscientTopLevelDataSetRegistratorState, DataSetInformation) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.ProgrammableDropboxObjectFactory

ProjectImmutable - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

ProjectImmutable(Project) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ProjectImmutable

ProjectImmutable(Project, boolean) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.ProjectImmutable

PropertyAssignmentImmutable - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

PropertyAssignmentImmutable(EntityTypePropertyType<? extends EntityType>) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.PropertyAssignmentImmutable

R

registerDataSetsInApplicationServer(TechId, List<DataSetRegistrationInformation<T>>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

Delegate method called by the DataSetStorageAlgorithmRunner.

removeEntity(IMetaprojectContent) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IMetaproject

remove assigned entity from this metaproject

removeEntity(IMetaprojectContent) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Metaproject

revokeRoleFromSpace(RoleWithHierarchy.RoleCode, ISpaceImmutable, List<String>, List<String>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

revokeRoleFromSpace(RoleWithHierarchy.RoleCode, ISpaceImmutable, List<String>, List<String>) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Take away users and/or groups access privileges to a space.

revokeRoleFromSpace(RoleWithHierarchy.RoleCode, ISpaceImmutable, List<String>, List<String>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

RoleAssignmentImmutable - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

RoleAssignmentImmutable(RoleAssignment) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.RoleAssignmentImmutable

rollback() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

Rollback any commands that have been executed.

ROLLBACK_PRE_REGISTRATION_FUNCTION_NAME - ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.JythonHookFunction

The name of the function to define to hook into the transaction rollback mechanism.

ROLLBACK_SERVICE_FUNCTION_NAME - ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.JythonHookFunction

The name of the function to define to hook into the service rollback mechanism.

ROLLBACK_TRANSACTION_FUNCTION_NAME - ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.JythonHookFunction

The name of the function to define to hook into the transaction rollback mechanism.

rollbackAndForgetTransaction() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonDataSetRegistrationServiceV2

rolls back the existing transaction

rollbackDeadTransactions(File) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

Check if there are any uncompleted transactions and roll them back.

rollbackPreRegistration(DataSetRegistrationContext, Throwable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.AbstractJavaDataSetRegistrationDropboxV2

Default implementation is to do nothing.

rollbackPreRegistration(DataSetRegistrationContext, Throwable) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IJavaDataSetRegistrationDropboxV2

Invoked if the transaction is rolledback before the metadata is registered with the openBIS AS.

rollbackPreRegistration(DataSetRegistrationContext, Throwable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonAsJavaDataSetRegistrationDropboxV2Wrapper

S

Sample - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

Sample(SampleImmutable) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Sample

Sample(Sample) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Sample

Sample(String, String) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Sample

SAMPLE - ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationHelper.EntityKind

SampleImmutable - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

SampleImmutable(Sample) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

Creates a new object that wraps the sample, which is assumed be an existing sample with all fetch options retrieved.

SampleImmutable(Sample, boolean) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

Creates a new object that wraps the sample, which is assumed to have all fetch options retrieved.

SampleImmutable(Sample, EnumSet<SampleFetchOption>) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

Creates a new object that wraps the sample, which is assumed be an existing sample.

SampleImmutable(Sample, EnumSet<SampleFetchOption>, boolean) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SampleImmutable

SCRIPT_PATH_KEY - Static variable in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

scriptFile - Variable in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

searchForDataSets(SearchCriteria) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

searchForDataSets(String, String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

searchForDataSets(String, String, String, boolean) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

searchForExperiments(SearchCriteria) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

searchForSamples(SearchCriteria) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

searchForSamples(String, String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

searchForSamples(String, String, String, boolean) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

searchForVocabulary(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

SearchService - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

SearchService(IEncapsulatedBasicOpenBISService) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SearchService

service - Variable in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.MetaprojectAssignments

SERVICE_VARIABLE_NAME - Static variable in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

The name of the local variable under which the service is made available to the script.

setChosenFromList(boolean) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Vocabulary

setChosenFromList(boolean) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IVocabulary

setCode(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyTerm

setCode(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IVocabularyTerm

Set the code of the vocabulary term.

setContainedDataSetCodes(List<String>) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetUpdatable

Set the codes for contained data sets.

setContainedDataSetCodes(List<String>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

setContainedDataSetCodes(List<String>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetUpdatable

setContainer(ISampleImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Sample

setContainer(ISampleImmutable) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.ISample

Set the container for this sample.

setDataSetKind(DataSetKind) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSet

setDataSetKind(DataSetKind) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

setDataSetType(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSet

Set the data set type.

setDataSetType(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

setDescription(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IMetaproject

set this metaproject description

setDescription(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Metaproject

setDescription(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Space

setDescription(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Vocabulary

setDescription(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyTerm

setDescription(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IProject

Set the project description.

setDescription(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.ISpace

Set the space description.

setDescription(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IVocabulary

Sets the vocabulary description.

setDescription(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IVocabularyTerm

Set the description of the vocabulary term.

setExperiment(IExperimentImmutable) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetUpdatable

Set the experiment for this data set.

setExperiment(IExperimentImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

setExperiment(IExperimentImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetUpdatable

setExperiment(IExperimentImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Sample

setExperiment(IExperimentImmutable) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.ISample

Set the experiment for this sample.

setExperiment(Experiment) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

setExperimentType(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IExperiment

Set the experiment type for this experiment.

setExternalCode(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetUpdatable

Set the code from the external data management system

setExternalCode(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

setExternalCode(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetUpdatable

setExternalDataManagementSystem(IExternalDataManagementSystemImmutable) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetUpdatable

Set the external data management system

setExternalDataManagementSystem(IExternalDataManagementSystemImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

setExternalDataManagementSystem(IExternalDataManagementSystemImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetUpdatable

setFileFormatType(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetUpdatable

Set the file format type.

setFileFormatType(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

setFileFormatType(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetUpdatable

setInternalNamespace(boolean) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Vocabulary

Deprecated.

use VocabularyImmutable.isManagedInternally()

setInternalNamespace(boolean) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IVocabulary

Deprecated.

use IVocabulary.setManagedInternally(boolean)

setLabel(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyTerm

setLabel(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IVocabularyTerm

Set the label of the vocabulary term.

setManagedInternally(boolean) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Vocabulary

setManagedInternally(boolean) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IVocabulary

Set to true if the vocabulary is managed internally in openBIS.

setMeasuredData(boolean) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSet

Set whether the data is measured or not.

setMeasuredData(boolean) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

setOrdinal(Long) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyTerm

setOrdinal(Long) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IVocabularyTerm

Set position of the term in the context of its vocabulary.

setParentDatasets(List<String>) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetUpdatable

Sets the parents of the dataset.

setParentDatasets(List<String>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

setParentDatasets(List<String>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetUpdatable

setParentSampleIdentifiers(List<String>) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Sample

setParentSampleIdentifiers(List<String>) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.ISample

Set the parent samples of this sample.

setProject(IProjectImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Sample

setProject(IProjectImmutable) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.ISample

Set the project for this sample.

setPropertyValue(String, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetUpdatable

Set the value for a property.

setPropertyValue(String, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IExperimentUpdatable

Set the value for a property.

setPropertyValue(String, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IMaterial

Set the value for a property.

setPropertyValue(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

setPropertyValue(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetUpdatable

setPropertyValue(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Material

setPropertyValue(String, String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Sample

setPropertyValue(String, String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.ISample

Set the value for a property.

setSample(ISampleImmutable) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetUpdatable

Set the sample for this data set.

setSample(ISampleImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

setSample(ISampleImmutable) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetUpdatable

setSampleType(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Sample

setSampleType(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.ISample

Set the type for this sample.

setSpeedHint(int) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSet

Sets the speed hint for the data set.

setSpeedHint(int) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

setUrlTemplate(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Vocabulary

setUrlTemplate(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IVocabulary

Sets a URL template (e.g a search query) that can display additional information for the concrete vocabulary terms.

setUserId(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.DataSetRegistrationTransactionV2Delegate

setUserId(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDataSetRegistrationTransactionV2

Set the id of the user on whose behalf this registration transaction is performed.

setUserId(String) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

SHOULD_RETRY_PROCESS_FUNCTION_NAME - ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.JythonHookFunction

The name of the function to define to hook into the transaction rollback mechanism.

shouldNotAddToFaultyPathsOrNull(File) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JavaTopLevelDataSetHandlerV2

V2 registration framework -- do not put files that are scheduled for recovery into the faulty paths.

shouldNotAddToFaultyPathsOrNull(File) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

V2 registration framework -- do not put files that are scheduled for recovery into the faulty paths.

shouldRetryProcessing(DataSetRegistrationContext, Exception) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.AbstractJavaDataSetRegistrationDropboxV2

Default implementation is to not retry processing.

shouldRetryProcessing(DataSetRegistrationContext, Exception) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IJavaDataSetRegistrationDropboxV2

Given the problem with registration, should it be retried?

shouldRetryProcessing(DataSetRegistrationContext, Exception) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonAsJavaDataSetRegistrationDropboxV2Wrapper

shownInEditViews() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.PropertyAssignmentImmutable

Space - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

Space(String, String) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Space

SpaceImmutable - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

SpaceImmutable(Space) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SpaceImmutable

SpaceImmutable(Space, boolean) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.SpaceImmutable

STATE_VARIABLE_NAME - Static variable in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

The name of the local variable under which the global state

SUCCESS_MESSAGE - Static variable in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSetRegistrationTransaction

T

TRANSACTION_VARIABLE_NAME - Static variable in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

The name of the local variable under which the transaction is made available to the script.

tryDataSetContents() - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.DataSet

tryJythonFunction(IJythonInterpreter, JythonTopLevelDataSetHandlerV2.JythonHookFunction) - Static method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

U

UserImmutable - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

UserImmutable(Person) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.UserImmutable

V

valueOf(String) - Static method in enum ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationHelper.EntityKind

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

valueOf(String) - Static method in enum ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.JythonHookFunction

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

values() - Static method in enum ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AuthorizationHelper.EntityKind

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

values() - Static method in enum ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2.JythonHookFunction

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

verifyEvaluatorHookFunctions(IJythonInterpreter) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.JythonTopLevelDataSetHandlerV2

Vocabulary - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

Vocabulary(Vocabulary) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.Vocabulary

VocabularyImmutable - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

VocabularyImmutable(Vocabulary) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyImmutable

VocabularyTerm - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

VocabularyTerm() - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyTerm

VocabularyTermImmutable - Class in ch.systemsx.cisd.etlserver.registrator.api.v2.impl

VocabularyTermImmutable(VocabularyTerm) - Constructor for class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.VocabularyTermImmutable

W

warn(String) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDSSRegistrationLogger

warn(String, Throwable) - Method in interface ch.systemsx.cisd.etlserver.registrator.api.v2.IDSSRegistrationLogger

willContinueRollbackAll(RollbackStack) - Method in class ch.systemsx.cisd.etlserver.registrator.api.v2.impl.AbstractTransactionState.LiveTransactionRollbackDelegate

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