- c2c() - Method in class omero.util.IceMapper
-
- cache - Variable in class ome.services.blitz.impl.ScriptI
-
- cache() - Method in class omero.sys.ParametersI
-
- CACHE_SIZE - Static variable in interface omero.gateway.cache.CacheService
-
The default size of a cache.
- CacheService - Interface in omero.gateway.cache
-
Defines the caching service interface.
- calculateMessageDigest_async(AMD_RawPixelsStore_calculateMessageDigest, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- calculateMessageDigest_async(AMD_RawPixelsStore_calculateMessageDigest, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- Callback - Class in ome.services.throttling
-
Manages AMD-based method dispatches from blitz.
- Callback(Boolean, Boolean, ServiceInterface, IceMethodInvoker, Object, IceMapper, Current, Object...) - Constructor for class ome.services.throttling.Callback
-
- Callback(ServiceInterface, IceMethodInvoker, IceMapper, Object, Current, Object...) - Constructor for class ome.services.throttling.Callback
-
- callback - Variable in class omero.cmd.SessionI
-
- Callback2<R> - Class in ome.services.throttling
-
Callable
-based callback which guarantees that ice_response or
ice_exception is called.
- Callback2(Current, Object, boolean, Callable<R>) - Constructor for class ome.services.throttling.Callback2
-
- CallContext - Class in omero.cmd
-
Interceptor which takes any context provided by the
client and calls setContext on CurrentDetails.
- CallContext(OmeroContext, String, Current) - Constructor for class omero.cmd.CallContext
-
- CallContext(OmeroContext, String) - Constructor for class omero.cmd.CallContext
-
- CallContext(CurrentDetails, String) - Constructor for class omero.cmd.CallContext
-
- callContextWrapper(Object, Current) - Method in class omero.cmd.SessionI
-
- callInvokerOnMappedArgs(IceMapper, Object, Current, Object...) - Method in class ome.services.blitz.impl.AbstractAmdServant
-
- callInvokerOnRawArgs(Object, Current, Object...) - Method in class ome.services.blitz.impl.AbstractAmdServant
-
- callInvokerOnRawArgs(ServiceInterface, IceMethodInvoker, Object, Current, Object...) - Method in interface ome.services.blitz.util.BlitzExecutor
-
- callInvokerOnRawArgs(ServiceInterface, IceMethodInvoker, Object, Current, Object...) - Method in class ome.services.throttling.InThreadThrottlingStrategy
-
- callInvokerOnRawArgs(ServiceInterface, IceMethodInvoker, Object, Current, Object...) - Method in class ome.services.throttling.SerialThrottlingStrategy
-
- callInvokerWithMappedArgs(ServiceInterface, IceMethodInvoker, IceMapper, Object, Current, Object...) - Method in interface ome.services.blitz.util.BlitzExecutor
-
Passes the given arguments to
IceMethodInvoker
with the
assumption that all conversion from omero.* to ome.* has taken place.
- callInvokerWithMappedArgs(ServiceInterface, IceMethodInvoker, IceMapper, Object, Current, Object...) - Method in class ome.services.throttling.InThreadThrottlingStrategy
-
- callInvokerWithMappedArgs(ServiceInterface, IceMethodInvoker, IceMapper, Object, Current, Object...) - Method in class ome.services.throttling.SerialThrottlingStrategy
-
- canAnnotate() - Method in class omero.gateway.model.DataObject
-
Returns true
if the object can be annotated
false
otherwise, depending on permissions level.
- canAnnotate(Current) - Method in class omero.model.PermissionsI
-
- CANCEL() - Constructor for exception ome.formats.importer.ImportCandidates.CANCEL
-
- cancel() - Method in class ome.formats.importer.ImportCandidates.SCANNING
-
Can be called to cancel the current action.
- cancel(Current) - Method in class ome.services.blitz.impl.ScriptProcessI
-
- cancel(Current) - Method in class omero.cmd.HandleI
-
- Cancel(String) - Constructor for exception omero.cmd.HandleI.Cancel
-
- cancel(ERR, Throwable, String, String...) - Method in class omero.cmd.Helper
-
- cancel(ERR, Throwable, String, Map<String, String>) - Method in class omero.cmd.Helper
-
- cancelJob_async(AMD_JobHandle_cancelJob, Current) - Method in class ome.services.blitz.impl.JobHandleI
-
- cancelUploads - Variable in class ome.formats.importer.util.ErrorHandler
-
- canChgrp() - Method in class omero.gateway.model.DataObject
-
Returns true
if the object can be moved by the user
currently logged in,
false
otherwise, depending on permissions level.
- canChgrp(Current) - Method in class omero.model.PermissionsI
-
- canChown() - Method in class omero.gateway.model.DataObject
-
Returns true
if the object can be given by the user
currently logged in,
false
otherwise, depending on permissions level.
- canChown(Current) - Method in class omero.model.PermissionsI
-
- canCreate(SecurityContext) - Method in class omero.gateway.Gateway
-
Get the read-only status of the server.
- canDelete() - Method in class omero.gateway.model.DataObject
-
Returns true
if the object can be deleted by the user
currently logged in,
false
otherwise, depending on permissions level.
- canDelete(Current) - Method in class omero.model.PermissionsI
-
- canEdit() - Method in class ome.services.blitz.repo.CheckedPath
-
- canEdit() - Method in class omero.gateway.model.DataObject
-
Returns true
if the object can be edited by the user
currently logged in false
otherwise,
depending on permissions level.
- canEdit(Current) - Method in class omero.model.PermissionsI
-
- canLink() - Method in class omero.gateway.model.DataObject
-
Returns true
if the object can be linked e.g. image
add to dataset, by the user currently logged in,
false
otherwise, depending on
permissions level.
- canLink(Current) - Method in class omero.model.PermissionsI
-
- canLogin() - Method in class ome.formats.importer.ImportConfig
-
Confirm all information for login is supplied
- canMapReturnValue() - Method in class omero.util.IceMapper
-
- canRead() - Method in class ome.services.blitz.repo.CheckedPath
-
Check if this file is actually readable on the underlying filesystem.
- canRunScript_async(AMD_IScript_canRunScript, long, Current) - Method in class ome.services.blitz.impl.ScriptI
-
- canUpdate(IObject, Current) - Method in interface ome.services.blitz.repo.RepositoryDao
-
Delegates to IAdmin#canUpdate
- canUpdate(IObject, Current) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
- canUpdate_async(AMD_IAdmin_canUpdate, IObject, Current) - Method in class ome.services.blitz.impl.AdminI
-
- canWriteParentDirectory(ServiceFactory, SqlAction, String, CheckedPath) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
Throw a SecurityViolation
if the current
context cannot write to the parent directory.
- castChildOptions(Collection<ChildOption>) - Static method in class omero.cmd.graphs.ChildOptionI
-
Cast ChildOption[]
to ChildOptionI[]
.
- cb - Variable in class ome.services.throttling.Task
-
- changeExpiredCredentials_async(AMD_IAdmin_changeExpiredCredentials, String, String, String, Current) - Method in class ome.services.blitz.impl.AdminI
-
- changeGroup_async(AMD_IAdmin_changeGroup, IObject, String, Current) - Method in class ome.services.blitz.impl.AdminI
-
- changeOwner_async(AMD_IAdmin_changeOwner, IObject, String, Current) - Method in class ome.services.blitz.impl.AdminI
-
- changePassword_async(AMD_IAdmin_changePassword, RString, Current) - Method in class ome.services.blitz.impl.AdminI
-
- changePasswordWithOldPassword_async(AMD_IAdmin_changePasswordWithOldPassword, RString, RString, Current) - Method in class ome.services.blitz.impl.AdminI
-
- changePermissions_async(AMD_IAdmin_changePermissions, IObject, Permissions, Current) - Method in class ome.services.blitz.impl.AdminI
-
- changeUserPassword_async(AMD_IAdmin_changeUserPassword, String, RString, Current) - Method in class ome.services.blitz.impl.AdminI
-
- Channel_EmissionWavelength - Static variable in class ome.formats.model.UnitsFactory
-
- Channel_ExcitationWavelength - Static variable in class ome.formats.model.UnitsFactory
-
- Channel_PinholeSize - Static variable in class ome.formats.model.UnitsFactory
-
- ChannelAcquisitionData - Class in omero.gateway.model
-
Object hosting the acquisition related to a logical channel.
- ChannelAcquisitionData(LogicalChannel) - Constructor for class omero.gateway.model.ChannelAcquisitionData
-
Creates a new instance.
- ChannelData - Class in ome.formats.model
-
Represents all the metadata required to make accurate decisions about
channel colour and name.
- ChannelData() - Constructor for class ome.formats.model.ChannelData
-
- ChannelData - Class in omero.gateway.model
-
The data that makes up an OME Channel along with links to its logical
channel.
- ChannelData(int) - Constructor for class omero.gateway.model.ChannelData
-
Creates a new instance.
- ChannelData(int, Channel) - Constructor for class omero.gateway.model.ChannelData
-
Creates a new instance.
- ChannelProcessor - Class in ome.formats.model
-
Processes the pixels sets of an IObjectContainerStore and ensures
that LogicalChannel containers are present in the container cache, and
populating channel name and colour where appropriate.
- ChannelProcessor() - Constructor for class ome.formats.model.ChannelProcessor
-
- check() - Method in interface omero.util.Resources.Entry
-
Called during each cycle.
- CheckAllJobs - Class in ome.services.blitz.util
-
- CheckAllJobs(Executor, ObjectAdapter, TopicManager) - Constructor for class ome.services.blitz.util.CheckAllJobs
-
- CheckAllJobs(Executor, ObjectAdapter, TopicManager, long) - Constructor for class ome.services.blitz.util.CheckAllJobs
-
- checkCluster() - Method in class ome.services.blitz.fire.Ring
-
Method called during initialization to get all the active uuids within
the cluster, and remove any dead nodes.
- CheckedPath - Class in ome.services.blitz.repo
-
To prevent frequently re-calculating paths and re-creating File objects,
CheckedPath
objects store various interpretations of paths that
are passed in by users.
- CheckedPath(ServerFilePathTransformer, String, ChecksumProviderFactory, ChecksumAlgorithm) - Constructor for class ome.services.blitz.repo.CheckedPath
-
Construct a CheckedPath from a relative "/"-delimited path rooted at the repository.
- checkedPaths - Variable in class ome.services.blitz.repo.ManagedImportLocationI
-
- checkIndex(int) - Method in class omero.util.ReadOnlyByteArray
-
Makes sure that i
is in [0, length)
.
- checkIsAdministrator(AdminPrivilege) - Method in class omero.cmd.graphs.GraphHelper
-
Check if the current user is an administrator.
- checkLocation(File, RawFileStorePrx) - Method in class ome.formats.importer.transfers.AbstractExecFileTransfer
-
Check that the target location: 1) doesn't exist and 2) is properly
written to by the server.
- checkNonNull(List<Point>) - Static method in class omero.model.SmartShape.Util
-
Used from assert statements of the form:
assert Util.checkNonNull(points) : "Null points in " + this;
in all the implementations of
SmartShape.asPoints()
.
- checkPassword(String) - Method in class ome.services.blitz.fire.Ring
-
Currently only returns false since if the regular password check
performed by SessionManager
cannot find the
session, then the cluster has no extra information.
- checkPath(String, ChecksumAlgorithm, Current) - Method in class ome.services.blitz.repo.PublicRepositoryI
-
Create a new
CheckedPath
object based on the given user input.
- checkPermissions(String, String, StringHolder, Current) - Method in class ome.services.blitz.fire.PermissionsVerifierI
-
- checksum(String, ChecksumAlgorithm) - Method in class ome.formats.importer.exclusions.AbstractFileExclusion
-
- CHECKSUM_ALGORITHM_NAMER - Static variable in class ome.services.blitz.util.ChecksumAlgorithmMapper
-
- checksumAlgorithm - Variable in class ome.formats.importer.ImportConfig
-
- ChecksumAlgorithmMapper - Class in ome.services.blitz.util
-
Work with ChecksumAlgorithm
enumeration instances,
including mapping their values back to ChecksumType
s.
- ChecksumAlgorithmMapper() - Constructor for class ome.services.blitz.util.ChecksumAlgorithmMapper
-
- checksumAlgorithms - Variable in class ome.services.blitz.repo.PublicRepositoryI
-
- checksumProviderFactory - Variable in class ome.services.blitz.repo.PublicRepositoryI
-
- checksums - Variable in class ome.formats.importer.ImportEvent.FILESET_UPLOAD_END
-
- checkTarget(File, TransferState) - Method in class ome.formats.importer.transfers.AbstractExecFileTransfer
-
Check that the server can properly read the copied file.
- checkUpgrade - Variable in class ome.formats.importer.ImportConfig
-
- chgrp() - Static method in class omero.gateway.util.Requests
-
- Chgrp2Builder() - Constructor for class omero.gateway.util.Requests.Chgrp2Builder
-
Instantiate a new Chgrp2
.
- Chgrp2I - Class in omero.cmd.graphs
-
Request to move model objects to a different experiment group.
- Chgrp2I(ACLVoter, Roles, GraphPathBean, LightAdminPrivileges, Deletion, Set<Class<? extends IObject>>, GraphPolicy, SetMultimap<String, String>, ApplicationContext) - Constructor for class omero.cmd.graphs.Chgrp2I
-
- child(String) - Method in class ome.services.blitz.repo.CheckedPath
-
Returns a new
CheckedPath
that has the given path appended
to the end of this instances path.
- ChildOptionI - Class in omero.cmd.graphs
-
Child options adjust how child objects are treated according to their type and, if annotations, namespace,
overriding the default graph traversal policy for orphans.
- ChildOptionI(GraphPathBean, ImmutableSet<String>) - Constructor for class omero.cmd.graphs.ChildOptionI
-
Construct a new child option instance.
- ChildOptionI(ChildOptionI) - Constructor for class omero.cmd.graphs.ChildOptionI
-
Construct a new child option instance identical to that given.
- ChildOptionsPolicy - Class in omero.cmd.graphs
-
Adjust graph traversal policy for child objects according to their type and, if annotations, namespace.
- ChildOptionsPolicy() - Constructor for class omero.cmd.graphs.ChildOptionsPolicy
-
- childType(Iterable<String>) - Method in class omero.gateway.util.Requests.FindChildrenBuilder
-
- childType(Class<? extends IObject>...) - Method in class omero.gateway.util.Requests.FindChildrenBuilder
-
- childType(String...) - Method in class omero.gateway.util.Requests.FindChildrenBuilder
-
- chmod() - Static method in class omero.gateway.util.Requests
-
- Chmod2Builder() - Constructor for class omero.gateway.util.Requests.Chmod2Builder
-
Instantiate a new Chmod2
.
- Chmod2I - Class in omero.cmd.graphs
-
Request to change the permissions on model objects.
- Chmod2I(ACLVoter, Roles, GraphPathBean, LightAdminPrivileges, Deletion, Set<Class<? extends IObject>>, GraphPolicy, SetMultimap<String, String>, ApplicationContext) - Constructor for class omero.cmd.graphs.Chmod2I
-
- chooseNextRedirect(Redirector.Context, Set<String>) - Method in class ome.services.blitz.redirect.ConfigRedirector
-
- chooseNextRedirect(Redirector.Context, Set<String>) - Method in class ome.services.blitz.redirect.NullRedirector
-
Does nothing.
- chooseNextRedirect(Redirector.Context, Set<String>) - Method in interface ome.services.blitz.redirect.Redirector
-
Gives the
Redirector
a chance to configure the next appropriate
redirect based on the
Set
of current
Node
uuids.
- chooseNextRedirect(Redirector.Context, Set<String>) - Method in class ome.services.blitz.redirect.ScaleRedirector
-
- chown() - Static method in class omero.gateway.util.Requests
-
- Chown2Builder() - Constructor for class omero.gateway.util.Requests.Chown2Builder
-
Instantiate a new Chown2
and initialize its collection containers.
- Chown2I - Class in omero.cmd.graphs
-
Request to give model objects to a different experimenter.
- Chown2I(ACLVoter, Roles, GraphPathBean, LightAdminPrivileges, Deletion, Set<Class<? extends IObject>>, GraphPolicy, SetMultimap<String, String>, ApplicationContext) - Constructor for class omero.cmd.graphs.Chown2I
-
- cleanServants(boolean) - Method in class omero.cmd.SessionI
-
- cleanServants(boolean, String, ServantHolder, ObjectAdapter) - Static method in class omero.cmd.SessionI
-
Clean all servants that are in the current holder and remove them from
the adapter.
- cleanTempDir() - Method in class omero.util.TempFileManager
-
Deletes the top-level temporary directory.
- cleanup() - Method in class ome.formats.importer.cli.CommandLineImporter
-
Cleans up after a successful or unsuccessful image import.
- cleanup() - Method in class omero.util.Resources
-
- cleanup() - Method in interface omero.util.Resources.Entry
-
Gives an
Resources.Entry
a chance to cleanup resources before it is
removed from checking.
- cleanup() - Method in class omero.util.TempFileManager
-
Releases the lock and deletes the top-level temporary directory.
- CleanupFailure - Exception in ome.formats.importer.transfers
-
Exception
thrown when cleaning up resources after transfer fails
partially or completely.
- CleanupFailure(List<File>) - Constructor for exception ome.formats.importer.transfers.CleanupFailure
-
- cleanupSelf() - Method in class omero.cmd.SessionI
-
Called if this isn't a kill-everything event.
- cleanupUpload(RawFileStorePrx, FileInputStream) - Method in class ome.formats.importer.transfers.AbstractFileTransfer
-
Utility method for closing resources.
- cleanUserDir() - Method in class omero.util.TempFileManager
-
Attempts to delete all directories under self.userdir other than the one
owned by this process.
- clear() - Method in class ome.formats.importer.ImportLibrary
-
- clear() - Static method in class omero.gateway.facility.Facility
-
Clears the Facility object cache
- clear() - Method in class omero.gateway.model.SearchResultCollection
-
- clear() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
reset all statistics
- clearAllCaches() - Method in interface omero.gateway.cache.CacheService
-
Clears all the caches.
- clearCache(int) - Method in interface omero.gateway.cache.CacheService
-
Clears the specified cache.
- clearErrors(int) - Method in class ome.formats.importer.util.ErrorHandler
-
- clearFiles() - Method in class ome.formats.importer.util.ErrorContainer
-
Clear the list of files to upload.
- clearQueries_async(AMD_Search_clearQueries, Current) - Method in class ome.services.blitz.impl.SearchI
-
- client - Class in omero
-
Central client-side blitz entry point.
- client() - Constructor for class omero.client
-
- client(InitializationData) - Constructor for class omero.client
-
Creates an Communicator
from a InitializationData
instance.
- client(String) - Constructor for class omero.client
-
Creates an Communicator
pointing at the given server using
the Server.DEFAULT_PORT
.
- client(String, int) - Constructor for class omero.client
-
Creates an Communicator
pointing at the given server with the
non-standard port.
- client(String[]) - Constructor for class omero.client
-
- client(String[], InitializationData) - Constructor for class omero.client
-
Creates an Communicator
from command-line arguments.
- client(File...) - Constructor for class omero.client
-
Creates an Communicator
from multiple files.
- client(Map) - Constructor for class omero.client
-
Creates an Communicator
from a Map
instance.
- client - Variable in class omero.model.DetailsI
-
- ClientError - Exception in omero
-
abstract superclass of all Omero exceptions.
- ClientError(String) - Constructor for exception omero.ClientError
-
- ClientFilePathTransformer - Class in ome.services.blitz.repo.path
-
Transform client-local
File
to repository
FsFile
path.
- ClientFilePathTransformer(Function<String, String>) - Constructor for class ome.services.blitz.repo.path.ClientFilePathTransformer
-
Construct a new client-side file path transformer.
- clientId - Variable in class omero.cmd.SessionI
-
- clientId(Current) - Static method in class omero.cmd.SessionI
-
Helpers method to extract the CLIENTUUID
out of the given
Ice.Current.
- clientIds - Variable in class omero.util.ServantHolder
-
An internal mapping to all client ids from
SessionI
for a given
DB session since there is no method on
ObjectAdapter
to retrieve
all servants.
- ClientKeepAlive - Class in ome.formats.importer.util
-
A Runnable
which keeps a Connector
's server-side resources
from timing out.
- ClientKeepAlive() - Constructor for class ome.formats.importer.util.ClientKeepAlive
-
- ClientPathExclusion - Class in ome.formats.importer.exclusions
-
Voter
which checks the original filepath from the client
(
FilesetEntry.getClientPath()
) for existence.
- ClientPathExclusion() - Constructor for class ome.formats.importer.exclusions.ClientPathExclusion
-
- close(boolean) - Method in class loci.ome.io.OmeroReader
-
Deprecated.
- close() - Method in class ome.formats.importer.OMEROWrapper
-
- close(Current) - Method in class ome.services.blitz.impl.AbstractCloseableAmdServant
-
- close(boolean, Current) - Method in class ome.services.blitz.impl.ScriptProcessI
-
- close() - Method in class ome.services.blitz.repo.AbstractRepositoryI
-
- close() - Method in class ome.services.blitz.repo.FileMaker
-
- close() - Method in class ome.services.formats.OmeroReader
-
- close(boolean) - Method in class omero.cmd.CmdCallbackI
-
First removes self from the adapter so as to no longer receive
notifications, and the calls close on the remote handle if requested.
- close(Current) - Method in class omero.cmd.HandleI
-
- close() - Method in class omero.gateway.facility.RawDataFacility
-
- close() - Method in class omero.gateway.Gateway
-
- close() - Method in class omero.gateway.rnd.DataSink
-
- close(Current) - Method in class omero.grid.InteractiveProcessorI
-
- close() - Method in class omero.grid.ProcessCallbackI
-
- close(Current) - Method in interface omero.util.CloseableServant
-
- close() - Method in class omero.util.RPSTileData
-
- close() - Method in interface omero.util.TileData
-
- close_async(AMD_StatefulServiceInterface_close, Current) - Method in class ome.services.blitz.impl.AbstractCloseableAmdServant
-
SessionHandler
also
specially catches close() calls, but cannot remove the servant
from the ObjectAdapter
and thereby prevent any
further communication.
- close_async(AMD_StatefulServiceInterface_close, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- CloseableServant - Interface in omero.util
-
- closeCalled(int) - Method in class ome.services.blitz.repo.ManagedImportProcessI
-
- closeCompleted(ImportConfig) - Static method in class ome.formats.importer.cli.CommandLineImporter
-
Look for all ImportProcessPrx
in the current session and close
them if they return a non-null Response
(i.e. they are done).
- closeConnector(SecurityContext) - Method in class omero.gateway.Gateway
-
- closeImport(SecurityContext, String) - Method in class omero.gateway.Gateway
-
Close Import for a certain user
- closeOnDestroy(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- closeService(SecurityContext, StatefulServiceInterfacePrx) - Method in class omero.gateway.Gateway
-
Close a service
- closeServices() - Method in class ome.formats.OMEROMetadataStoreClient
-
Closes all stateful services.
- closeSession() - Method in class omero.client
-
Closes the session and nulls out the communicator.
- closeSession() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- closeSession_async(AMD_ISession_closeSession, Session, Current) - Method in class ome.services.blitz.impl.SessionI
-
- closeShare_async(AMD_IShare_closeShare, long, Current) - Method in class ome.services.blitz.impl.ShareI
-
- closeStatement() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- closeUploader() - Method in class ome.formats.importer.transfers.TransferState
-
Call StatefulServiceInterfacePrx.close()
on the cached uploader
instance if non-null and null the instance.
- CmdCallbackI - Class in omero.cmd
-
Callback servant used to wait until a HandlePrx would
return non-null on getReponse.
- CmdCallbackI(client, HandlePrx) - Constructor for class omero.cmd.CmdCallbackI
-
- CmdCallbackI(CmdCallbackI) - Constructor for class omero.cmd.CmdCallbackI
-
- CmdCallbackI(ObjectAdapter, String, HandlePrx) - Constructor for class omero.cmd.CmdCallbackI
-
- ColorsFactory - Class in ome.formats.model
-
Utility class to determine the color usually associated to a specified
channel depending on its emission wavelength.
- ColorsFactory() - Constructor for class ome.formats.model.ColorsFactory
-
- combineFilePathRestrictions(FilePathRestrictions...) - Static method in class ome.services.blitz.repo.path.FilePathRestrictions
-
Combine sets of rules to form a set that satisfies them all and that
include transformations away from Unicode control characters.
- CommandLineImporter - Class in ome.formats.importer.cli
-
The base entry point for the CLI version of the OMERO importer.
- CommandLineImporter(ImportConfig, String[], boolean) - Constructor for class ome.formats.importer.cli.CommandLineImporter
-
- CommandLineImporter(ImportConfig, String[], boolean, FileTransfer, int) - Constructor for class ome.formats.importer.cli.CommandLineImporter
-
Legacy constructor without any file exclusions.
- CommandLineImporter(ImportConfig, String[], boolean, FileTransfer, List<FileExclusion>, int) - Constructor for class ome.formats.importer.cli.CommandLineImporter
-
Main entry class for the application.
- commonRoot(List<FsFile>) - Method in class ome.services.blitz.repo.ManagedRepositoryI
-
From a list of paths, calculate the common root path that all share.
- COMPANION_FILE_NS - Static variable in class omero.gateway.model.FileAnnotationData
-
The name space used to indicate that the FileAnnotation
is a companion file.
- compare(LSID, LSID) - Method in class ome.formats.OMEXMLModelComparator
-
- compare(Dataset, Dataset) - Method in class ome.formats.SortDatasetsByName
-
- compare(Project, Project) - Method in class ome.formats.SortProjectsByName
-
- compare(Object, Object) - Method in class omero.gateway.model.ROICoordinate
-
Implemented as specified by the Comparator
I/F.
- complete() - Method in class ome.formats.OverlayMetadataStore
-
Completes overlay population, flushing in memory ROI.
- COMPLEX_TYPE - Static variable in class omero.gateway.model.PixelsData
-
Identifies the type used to store pixel values.
- concatenate(FsFile...) - Static method in class ome.services.blitz.repo.path.FsFile
-
Concatenate paths.
- ConcurrentStatisticsImpl - Class in org.hibernate.stat
-
Implementation of Statistics
, as well as StatisticsImplementor
, based on the
java.util.concurrent
package introduced in Java 5.
- ConcurrentStatisticsImpl() - Constructor for class org.hibernate.stat.ConcurrentStatisticsImpl
-
- ConcurrentStatisticsImpl(SessionFactoryImplementor) - Constructor for class org.hibernate.stat.ConcurrentStatisticsImpl
-
- config - Variable in class ome.formats.importer.cli.CommandLineImporter
-
Configuration used by all components
- config - Variable in class ome.formats.importer.util.ErrorHandler
-
- ConfigI - Class in ome.services.blitz.impl
-
Implementation of the IConfig service.
- ConfigI(IConfig, BlitzExecutor) - Constructor for class ome.services.blitz.impl.ConfigI
-
- ConfigRedirector - Class in ome.services.blitz.redirect
-
Redirector
implementation which uses the
REDIRECT
config key
via
LocalConfig
to know which
Node
is currently active.
- ConfigRedirector(Executor) - Constructor for class ome.services.blitz.redirect.ConfigRedirector
-
- configureDebug(String) - Method in class ome.formats.importer.ImportConfig
-
Modifies the logging level of everything under the
ome.formats
, ome.services.blitz
,
ome.system
and loci
packages hierarchically.
- configureServant(Object) - Method in class omero.cmd.SessionI
-
Apply proper AOP and call setters for any known injection properties.
- connect(LoginCredentials) - Method in class omero.gateway.Gateway
-
Connect to the server
- connect() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- CONNECTION - Static variable in exception omero.gateway.exception.RenderingServiceException
-
Indicates that the error occurred due to a connection failure.
- ConnectionStatus - Enum in omero.gateway.exception
-
The various connections status.
- consolidate() - Method in class omero.gateway.model.SearchResultCollection
-
Removes results which DataObjects are not set
- containedExperimenters_async(AMD_IAdmin_containedExperimenters, long, Current) - Method in class ome.services.blitz.impl.AdminI
-
- containedGroups_async(AMD_IAdmin_containedGroups, long, Current) - Method in class ome.services.blitz.impl.AdminI
-
- container - Variable in class ome.formats.importer.ImportEvent.PROGRESS_EVENT
-
- ContainerI - Class in ome.services.blitz.impl
-
Implementation of the IContainer service.
- ContainerI(IContainer, BlitzExecutor) - Constructor for class ome.services.blitz.impl.ContainerI
-
- contains(Object) - Method in class omero.gateway.model.SearchResultCollection
-
- contentLength - Variable in class ome.formats.importer.ImportEvent.FILE_UPLOAD_EVENT
-
- context - Variable in class ome.services.blitz.fire.SessionManagerI
-
- context - Variable in class ome.services.blitz.repo.PublicRepositoryI
-
- context - Variable in class omero.cmd.SessionI
-
- contexts - Variable in class omero.cmd.admin.CurrentSessionsRequestI
-
- contOnError - Variable in class ome.formats.importer.ImportConfig
-
- control - Variable in class omero.cmd.SessionI
-
- convert(ElectricPotential) - Static method in class omero.model.ElectricPotentialI
-
FIXME: this should likely take a default so that locations which don't
want an exception can have
log.warn("Using new PositiveFloat(1.0)!"
- convert(Frequency) - Static method in class omero.model.FrequencyI
-
FIXME: this should likely take a default so that locations which don't
want an exception can have
log.warn("Using new PositiveFloat(1.0)!"
- convert(Length) - Static method in class omero.model.LengthI
-
FIXME: this should likely take a default so that locations which don't
want an exception can have
log.warn("Using new PositiveFloat(1.0)!"
- convert(Power) - Static method in class omero.model.PowerI
-
FIXME: this should likely take a default so that locations which don't
want an exception can have
log.warn("Using new PositiveFloat(1.0)!"
- convert(Pressure) - Static method in class omero.model.PressureI
-
FIXME: this should likely take a default so that locations which don't
want an exception can have
log.warn("Using new PositiveFloat(1.0)!"
- convert(Temperature) - Static method in class omero.model.TemperatureI
-
FIXME: this should likely take a default so that locations which don't
want an exception can have
log.warn("Using new PositiveFloat(1.0)!"
- convert(Time) - Static method in class omero.model.TimeI
-
FIXME: this should likely take a default so that locations which don't
want an exception can have
log.warn("Using new PositiveFloat(1.0)!"
- convert(IceMapper) - Method in interface omero.rtypes.Conversion
-
Convert the "val" field on the given RType instance to an ome.model.*
representation.
- convert(EventContext) - Static method in class omero.util.IceMapper
-
- convert(RGBBuffer) - Static method in class omero.util.IceMapper
-
- convert(CodomainMapContext) - Method in class omero.util.IceMapper
-
Converts the passed Ice Object and returns the converted object.
- convert(PlaneDef) - Static method in class omero.util.IceMapper
-
Converts the passed Ice Object and returns the converted object.
- convert(Principal) - Static method in class omero.util.IceMapper
-
- convert(Roles) - Static method in class omero.util.IceMapper
-
- convert(Date) - Static method in class omero.util.IceMapper
-
- convert(RTime) - Static method in class omero.util.IceMapper
-
- convert(Parameters) - Method in class omero.util.IceMapper
-
- convert(String, Object) - Method in class omero.util.IceMapper
-
- convert(Options) - Static method in class omero.util.IceMapper
-
- convert(Filter) - Static method in class omero.util.IceMapper
-
- convert(Permissions) - Static method in class omero.util.IceMapper
-
- convert(Permissions) - Static method in class omero.util.IceMapper
-
- convertElectricPotential(ElectricPotential) - Static method in class ome.formats.model.UnitsFactory
-
Convert a Bio-Formats ElectricPotential
to an OMERO
ElectricPotential.
- convertElectricPotential(ElectricPotential) - Static method in class ome.formats.model.UnitsFactory
-
- convertElectricPotential(ElectricPotential, Unit<ElectricPotential>) - Static method in class ome.formats.model.UnitsFactory
-
- convertElectricPotentialXML(ElectricPotential, String) - Static method in class ome.formats.model.UnitsFactory
-
- convertFrequency(Frequency) - Static method in class ome.formats.model.UnitsFactory
-
Convert a Bio-Formats Frequency
to an OMERO Frequency.
- convertFrequency(Frequency) - Static method in class ome.formats.model.UnitsFactory
-
- convertFrequency(Frequency, Unit<Frequency>) - Static method in class ome.formats.model.UnitsFactory
-
- convertFrequencyXML(Frequency, String) - Static method in class ome.formats.model.UnitsFactory
-
- convertLength(Length) - Static method in class ome.formats.model.UnitsFactory
-
Convert a Bio-Formats Length
to an OMERO Length.
- convertLength(Length) - Static method in class ome.formats.model.UnitsFactory
-
- convertLength(Length, Unit<Length>) - Static method in class ome.formats.model.UnitsFactory
-
- convertLengthXML(Length, String) - Static method in class ome.formats.model.UnitsFactory
-
- convertMapPairs(List<MapPair>) - Static method in class omero.util.IceMapper
-
- convertNamedValueList(List<NamedValue>) - Static method in class omero.util.IceMapper
-
- convertPower(Power) - Static method in class ome.formats.model.UnitsFactory
-
Convert a Bio-Formats Power
to an OMERO Power.
- convertPower(Power) - Static method in class ome.formats.model.UnitsFactory
-
- convertPower(Power, Unit<Power>) - Static method in class ome.formats.model.UnitsFactory
-
- convertPowerXML(Power, String) - Static method in class ome.formats.model.UnitsFactory
-
- convertPressure(Pressure) - Static method in class ome.formats.model.UnitsFactory
-
Convert a Bio-Formats Pressure
to an OMERO Pressure.
- convertPressure(Pressure) - Static method in class ome.formats.model.UnitsFactory
-
- convertPressure(Pressure, Unit<Pressure>) - Static method in class ome.formats.model.UnitsFactory
-
- convertPressureXML(Pressure, String) - Static method in class ome.formats.model.UnitsFactory
-
- convertRTypeToJava(RType) - Static method in class omero.gateway.util.ModelMapper
-
Converts the passed OMERO type into its corresponding Java type.
- convertStringStringMap(Map<String, String>) - Static method in class omero.util.IceMapper
-
Convert a String→String map's values to RString
s.
- convertTemperature(Temperature) - Static method in class ome.formats.model.UnitsFactory
-
Convert a Bio-Formats Temperature
to an OMERO
Temperature.
- convertTemperature(Temperature) - Static method in class ome.formats.model.UnitsFactory
-
- convertTemperature(Temperature, Unit<Temperature>) - Static method in class ome.formats.model.UnitsFactory
-
- convertTemperatureXML(Temperature, String) - Static method in class ome.formats.model.UnitsFactory
-
- convertTime(Time) - Static method in class ome.formats.model.UnitsFactory
-
Convert a Bio-Formats Time
to an OMERO Time.
- convertTime(Time) - Static method in class ome.formats.model.UnitsFactory
-
- convertTime(Time, Unit<Time>) - Static method in class ome.formats.model.UnitsFactory
-
- convertTimeXML(Time, String) - Static method in class ome.formats.model.UnitsFactory
-
- ConvertToBlitzExceptionMessage - Class in ome.services.blitz.util
-
Internal event which gives third party services a chance to map their
exceptions to a blitz exception.
- ConvertToBlitzExceptionMessage(Object, Throwable) - Constructor for class ome.services.blitz.util.ConvertToBlitzExceptionMessage
-
- convertToDataObjects(Collection) - Static method in class omero.gateway.util.PojoMapper
-
Converts each
element
of the collection into its
corresponding
DataObject
.
- convertTypeForSearch(Class) - Static method in class omero.gateway.util.PojoMapper
-
Converts the specified type to its corresponding type for search.
- convertXml(MetadataRetrieve) - Method in class ome.services.blitz.impl.ExporterI
-
- copy() - Method in class omero.gateway.SecurityContext
-
Returns a copy of the security context.
- copy(Current) - Method in class omero.model.ElectricPotentialI
-
- copy(Current) - Method in class omero.model.FrequencyI
-
- copy(Current) - Method in class omero.model.LengthI
-
- copy(Current) - Method in class omero.model.PowerI
-
- copy(Current) - Method in class omero.model.PressureI
-
- copy(Current) - Method in class omero.model.TemperatureI
-
- copy(Current) - Method in class omero.model.TimeI
-
- copyAndResizeImage_async(AMD_IPixels_copyAndResizeImage, long, RInt, RInt, RInt, RInt, List<Integer>, String, boolean, Current) - Method in class ome.services.blitz.impl.PixelsI
-
- copyAndResizePixels_async(AMD_IPixels_copyAndResizePixels, long, RInt, RInt, RInt, RInt, List<Integer>, String, boolean, Current) - Method in class ome.services.blitz.impl.PixelsI
-
- copyAnnotationLinks() - Method in class omero.gateway.model.FolderData
-
Copy the list of annotation links, see
Folder.copyAnnotationLinks()
- copyChildFolders() - Method in class omero.gateway.model.FolderData
-
Copy the list of child folders, see Folder.copyChildFolders()
- copyFieldsTo(Chgrp2) - Method in class omero.cmd.graphs.Chgrp2I
-
- copyFieldsTo(Chmod2) - Method in class omero.cmd.graphs.Chmod2I
-
- copyFieldsTo(Chown2) - Method in class omero.cmd.graphs.Chown2I
-
- copyFieldsTo(Delete2) - Method in class omero.cmd.graphs.Delete2I
-
- copyFieldsTo(Duplicate) - Method in class omero.cmd.graphs.DuplicateI
-
- copyFieldsTo(X) - Method in interface omero.cmd.graphs.WrappableRequest
-
Copy the fields of this request to that of the given request.
- CopyFileTransfer - Class in ome.formats.importer.transfers
-
Local-only file transfer mechanism which makes use of the plaform
copy command.
- CopyFileTransfer() - Constructor for class ome.formats.importer.transfers.CopyFileTransfer
-
- copyImageLinks() - Method in class omero.gateway.model.FolderData
-
Copy the list of image links, see Folder.copyImageLinks()
- CopyMoveFileTransfer - Class in ome.formats.importer.transfers
-
Local-only file transfer mechanism which makes use of the
local copy command followed by the deletion of the original
source file.
- CopyMoveFileTransfer() - Constructor for class ome.formats.importer.transfers.CopyMoveFileTransfer
-
- copyMultimapForResponse(SetMultimap<String, Long>) - Static method in class omero.cmd.graphs.GraphUtil
-
Copy a multimap to a new map.
- copyObject(Filterable, ModelMapper) - Method in class omero.model.DetailsI
-
- copyObject(Filterable, ModelMapper) - Method in class omero.model.ElectricPotentialI
-
- copyObject(Filterable, ModelMapper) - Method in class omero.model.FrequencyI
-
- copyObject(Filterable, ModelMapper) - Method in class omero.model.LengthI
-
- copyObject(Filterable, ModelMapper) - Method in class omero.model.PermissionsI
-
- copyObject(Filterable, ModelMapper) - Method in class omero.model.PowerI
-
- copyObject(Filterable, ModelMapper) - Method in class omero.model.PressureI
-
- copyObject(Filterable, ModelMapper) - Method in class omero.model.TemperatureI
-
- copyObject(Filterable, ModelMapper) - Method in class omero.model.TimeI
-
- copyROILinks() - Method in class omero.gateway.model.FolderData
-
Copy the list of roi links, see Folder.copyRoiLinks()
- countAnnotationsUsedNotOwned_async(AMD_IMetadata_countAnnotationsUsedNotOwned, String, long, Current) - Method in class ome.services.blitz.impl.MetadataI
-
- countByPeriod_async(AMD_ITimeline_countByPeriod, List<String>, RTime, RTime, Parameters, Current) - Method in class ome.services.blitz.impl.TimelineI
-
- countCachedContainers(Class<? extends IObject>, int...) - Method in interface ome.formats.model.IObjectContainerStore
-
Counts the number of containers the MetadataStore has of a given class
and at a given index of the hierarchy if specified.
- countCachedContainers(Class<? extends IObject>, int...) - Method in class ome.formats.OMEROMetadataStoreClient
-
- countCachedReferences(Class<? extends IObject>, Class<? extends IObject>) - Method in interface ome.formats.model.IObjectContainerStore
-
Counts the number of references the MetadataStore has between objects
of two classes.
- countCachedReferences(Class<? extends IObject>, Class<? extends IObject>) - Method in class ome.formats.OMEROMetadataStoreClient
-
- countSpecifiedAnnotations_async(AMD_IMetadata_countSpecifiedAnnotations, String, List<String>, List<String>, Parameters, Current) - Method in class ome.services.blitz.impl.MetadataI
-
- cpf - Variable in class ome.services.blitz.impl.ScriptI
-
- create(String, SessionControlPrx, Current) - Method in class ome.services.blitz.fire.SessionManagerI
-
- create(String) - Method in class omero.util.ObjectFactoryRegistry.ObjectFactory
-
- create(File) - Method in class omero.util.TempFileManager
-
If the given directory doesn't exist, creates it and returns true.
- create_path() - Static method in class omero.util.TempFileManager
-
- create_path(String) - Static method in class omero.util.TempFileManager
-
- create_path(String, String) - Static method in class omero.util.TempFileManager
-
- create_path(String, String, boolean) - Static method in class omero.util.TempFileManager
-
- createAdapter() - Method in class ome.services.blitz.util.BlitzConfiguration
-
Creates an adapter with the name "BlitzAdapter", which must be properly
configured via --Ice.Config or ICE_CONFIG or similar.
- createAndRegisterManager(SessionManager, SecuritySystem, Executor) - Method in class ome.services.blitz.util.BlitzConfiguration
-
- createAndRegisterVerifier(SessionManager, SessionProvider, Executor) - Method in class ome.services.blitz.util.BlitzConfiguration
-
- createAnnotation(AnnotationData) - Static method in class omero.gateway.util.ModelMapper
-
Creates a new annotation IObject
.
- createAnnotationAndLink(IObject, AnnotationData) - Static method in class omero.gateway.util.ModelMapper
-
Creates a new annotation IObject
.
- createByName(String, Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- createByName(String, Current, boolean) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- createCache() - Method in interface omero.gateway.cache.CacheService
-
Creates a default cache.
- createCache(int, int) - Method in interface omero.gateway.cache.CacheService
-
Creates a cache of a given type.
- createCache(int) - Method in interface omero.gateway.cache.CacheService
-
Creates a cache of a given type.
- createCallback(ImportProcessPrx, HandlePrx, ImportContainer) - Method in class ome.formats.importer.ImportLibrary
-
- createChildOption() - Method in class omero.cmd.graphs.GraphRequestFactory
-
- createClient(boolean) - Method in class omero.client
-
- createCommunicator() - Method in class ome.services.blitz.util.BlitzConfiguration
-
- createCommunicator(String, String[]) - Method in class ome.services.blitz.util.BlitzConfiguration
-
- createData() - Method in class omero.util.RPSTileLoop
-
- createData() - Method in class omero.util.TileLoop
-
Subclasses must provide a fresh instance of
TileData
.
- createDataObject_async(AMD_IContainer_createDataObject, IObject, Parameters, Current) - Method in class ome.services.blitz.impl.ContainerI
-
- createDataObjects_async(AMD_IContainer_createDataObjects, List<IObject>, Parameters, Current) - Method in class ome.services.blitz.impl.ContainerI
-
- createDataset(SecurityContext, DatasetData, ProjectData) - Method in class omero.gateway.facility.DataManagerFacility
-
Creates the
DatasetData
on the server and attaches it
to the
ProjectData
(if not
null
) (if the
project doesn't exist on the server yet, it will be created, too)
- createEnumeration_async(AMD_ITypes_createEnumeration, IObject, Current) - Method in class ome.services.blitz.impl.TypesI
-
- createExclusion(String) - Static method in class ome.formats.importer.exclusions.AbstractFileExclusion
-
Factory method for instantiating
FileTransfer
objects from
a string.
- createExperimenter(SecurityContext, ExperimenterData, String, String, List<GroupData>, boolean, boolean) - Method in class omero.gateway.facility.AdminFacility
-
Creates an experimenter and returns it.
- createExperimenter(SecurityContext, ExperimenterData, String, String, List<GroupData>, boolean, boolean, List<String>) - Method in class omero.gateway.facility.AdminFacility
-
Creates an experimenter and returns it.
- createExperimenter_async(AMD_IAdmin_createExperimenter, Experimenter, ExperimenterGroup, List<ExperimenterGroup>, Current) - Method in class ome.services.blitz.impl.AdminI
-
- createExperimenterWithPassword_async(AMD_IAdmin_createExperimenterWithPassword, Experimenter, RString, ExperimenterGroup, List<ExperimenterGroup>, Current) - Method in class ome.services.blitz.impl.AdminI
-
- createExporter(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- createFactories(Communicator) - Method in class ome.services.blitz.impl.commands.RequestObjectFactoryRegistry
-
- createFactories(Communicator) - Method in class ome.services.blitz.repo.RequestObjectFactoryRegistry
-
- createFactories(Communicator) - Method in class ome.services.roi.RoiTypes.RoiTypesObjectFactoryRegistry
-
- createFactories(Communicator) - Method in class omero.cmd.admin.CurrentSessionsRequestI.Factory
-
- createFactories(Communicator) - Method in class omero.cmd.admin.UpdateSessionTimeoutRequestI.Factory
-
- createFactories(Communicator) - Method in class omero.cmd.RequestObjectFactoryRegistry
-
- createFactories(Communicator) - Method in class omero.rtypes.RTypeObjectFactoryRegistry
-
- createFactories(Communicator) - Method in class omero.util.ObjectFactoryRegistry
-
- createGroup(SecurityContext, GroupData, ExperimenterData, int) - Method in class omero.gateway.facility.AdminFacility
-
Creates a group and returns it.
- createGroup_async(AMD_IAdmin_createGroup, ExperimenterGroup, Current) - Method in class ome.services.blitz.impl.AdminI
-
- createHandle(Request) - Method in class omero.cmd.HandleFactory
-
- createImage_async(AMD_IPixels_createImage, int, int, int, int, List<Integer>, PixelsType, String, String, Current) - Method in class ome.services.blitz.impl.PixelsI
-
- createImport(ImportContainer) - Method in class ome.formats.importer.ImportLibrary
-
Provide initial configuration to the server in order to create the
ImportProcessPrx
which will manage state server-side.
- createImportProcess(Fileset, ImportLocation, ImportSettings, Current) - Method in class ome.services.blitz.repo.ManagedRepositoryI
-
Creating the process will register itself in an appropriate
container (i.e. a SessionI or similar) for the current
user and therefore this instance no longer needs to worry
about the maintenance of the object.
- createIObject(DataObject) - Static method in class omero.gateway.util.ModelMapper
-
Converts the specified DataObject
into its corresponding
IObject
.
- createIObject(DataObject, DataObject) - Static method in class omero.gateway.util.ModelMapper
-
Converts the specified DataObject
into its corresponding
IObject
.
- createJob(ServiceFactory) - Method in class ome.services.scripts.ScriptFinder
-
Returns a fresh (unsaved) ScriptJob
which can be passed to
acquireProcessor for background processing.
- createJobHandle(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- createNewRenderingDef_async(AMD_IRenderingSettings_createNewRenderingDef, Pixels, Current) - Method in class ome.services.blitz.impl.RenderingSettingsI
-
- createOrFixUserDir(String, List<CheckedPath>, Session, ServiceFactory, SqlAction) - Method in interface ome.services.blitz.repo.RepositoryDao
-
- createOrFixUserDir(String, List<CheckedPath>, Session, ServiceFactory, SqlAction) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
- createOriginalFile(ServiceFactory, SqlAction, String, List<CheckedPath>, ChecksumAlgorithm, String, Session) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
Primary location for creating original files from a
CheckedPath
instance.
- createPath(String, String, boolean) - Method in class omero.util.TempFileManager
-
Uses File.createTempFile(String, String, File)
to create
temporary files and folders under the top-level temporary directory.
- createPixelsStore(SecurityContext) - Method in class omero.gateway.Gateway
-
Create a RawPixelsStorePrx
- createProcessBuilder(File, File) - Method in class ome.formats.importer.transfers.AbstractExecFileTransfer
-
Creates a ProcessBuilder
instance ready to have
ProcessBuilder.start()
called on it.
- createProcessBuilder(File, File) - Method in class ome.formats.importer.transfers.CopyFileTransfer
-
Executes "cp file location" (Unix) or "cp file location" (Windows)
and fails on non-0 return codes.
- createProcessBuilder(File, File) - Method in class ome.formats.importer.transfers.HardlinkFileTransfer
-
Executes "ln file location" (Unix) or "mklink /H location file" (Windows)
and fails on non-0 return codes.
- createProcessBuilder(File, File) - Method in class ome.formats.importer.transfers.SymlinkFileTransfer
-
Executes "ln -s file location" (Unix) or "mklink location file" (Windows)
and fails on non-0 return codes.
- createRawFileStore(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- createRawFileStore(OriginalFile, Current) - Method in class ome.services.blitz.repo.AbstractRepositoryI
-
- createRawPixelsStore(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- createRawPixelsStore(OriginalFile, Current) - Method in class ome.services.blitz.repo.AbstractRepositoryI
-
- createRenderingEngine(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- createRenderingEngine(OriginalFile, Current) - Method in class ome.services.blitz.repo.AbstractRepositoryI
-
- createRepoRFS(CheckedPath, String, Current) - Method in class ome.services.blitz.repo.PublicRepositoryI
-
Create, initialize, and register an
RepoRawFileStoreI
with the proper setting (read or write).
- createRestrictedSystemUser_async(AMD_IAdmin_createRestrictedSystemUser, Experimenter, List<AdminPrivilege>, Current) - Method in class ome.services.blitz.impl.AdminI
-
- createRestrictedSystemUserWithPassword_async(AMD_IAdmin_createRestrictedSystemUserWithPassword, Experimenter, List<AdminPrivilege>, RString, Current) - Method in class ome.services.blitz.impl.AdminI
-
- createRoot() - Method in class ome.formats.OMEROMetadataStoreClient
-
- createRoot_async(AMD_MetadataStore_createRoot, Current) - Method in class ome.services.blitz.impl.MetadataStoreI
-
- createSearchService(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- createServantDelegate(String) - Method in class omero.cmd.SessionI
-
Creates a proxy according to the servant definition for the given
name.
- createSession() - Method in class omero.client
-
- createSession(String, String) - Method in class omero.client
-
- createSession_async(AMD_ISession_createSession, Principal, String, Current) - Method in class ome.services.blitz.impl.SessionI
-
- createSessionWithTimeout_async(AMD_ISession_createSessionWithTimeout, Principal, long, Current) - Method in class ome.services.blitz.impl.SessionI
-
- createSessionWithTimeouts_async(AMD_ISession_createSessionWithTimeouts, Principal, long, long, Current) - Method in class ome.services.blitz.impl.SessionI
-
- createShare_async(AMD_IShare_createShare, String, RTime, List<IObject>, List<Experimenter>, List<String>, boolean, Current) - Method in class ome.services.blitz.impl.ShareI
-
- createStore() - Method in class ome.formats.importer.ImportConfig
-
Create and return a new OMEROMetadataStoreClient
- createSystemUser_async(AMD_IAdmin_createSystemUser, Experimenter, Current) - Method in class ome.services.blitz.impl.AdminI
-
- createTableResult(TablePrx, String, long) - Static method in class omero.gateway.util.PyTablesUtils
-
Transforms the passed table data for a given image.
- createTableResult(TablePrx, long[]) - Static method in class omero.gateway.util.PyTablesUtils
-
Transforms a set of rows for the passed table.
- createTempFile(String, String) - Static method in class omero.util.TempFileManager
-
- createTemplatePath(Object, Current) - Method in class ome.services.blitz.repo.ManagedRepositoryI
-
Expand the template path and create its directories with the correct ownership.
- createThumbnail_async(AMD_ThumbnailStore_createThumbnail, RInt, RInt, Current) - Method in class ome.services.blitz.impl.ThumbnailStoreI
-
- createThumbnails_async(AMD_ThumbnailStore_createThumbnails, Current) - Method in class ome.services.blitz.impl.ThumbnailStoreI
-
- createThumbnailsByLongestSideSet_async(AMD_ThumbnailStore_createThumbnailsByLongestSideSet, RInt, List<Long>, Current) - Method in class ome.services.blitz.impl.ThumbnailStoreI
-
- createThumbnailStore(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- createThumbnailStore(OriginalFile, Current) - Method in class ome.services.blitz.repo.AbstractRepositoryI
-
- createThumbnailStore(SecurityContext) - Method in class omero.gateway.Gateway
-
Create a ThumbnailStorePrx
- createTransfer(String) - Static method in class ome.formats.importer.transfers.AbstractFileTransfer
-
Factory method for instantiating
FileTransfer
objects from
a string.
- createUploadProcess(Fileset, ImportLocation, ImportSettings, Current, boolean) - Method in class ome.services.blitz.repo.ManagedRepositoryI
-
Creating the process will register itself in an appropriate
container (i.e. a SessionI or similar) for the current
user and therefore this instance no longer needs to worry
about the maintenance of the object.
- createUser_async(AMD_IAdmin_createUser, Experimenter, String, Current) - Method in class ome.services.blitz.impl.AdminI
-
- createUser_async(AMD_ILdap_createUser, String, Current) - Method in class ome.services.blitz.impl.LdapI
-
- createUserSession_async(AMD_ISession_createUserSession, long, long, String, Current) - Method in class ome.services.blitz.impl.SessionI
-
- CSV - Static variable in class omero.gateway.model.FileAnnotationData
-
Identifies the CSV
file formats.
- ctx - Variable in class ome.services.blitz.impl.AbstractAmdServant
-
- ctx - Variable in class ome.services.throttling.AbstractThrottlingStrategy
-
- curr - Variable in class ome.services.blitz.util.FindServiceFactoryMessage
-
- current - Variable in class ome.services.throttling.Task
-
- current - Variable in class omero.cmd.admin.CurrentSessionsRequestI
-
- current - Variable in class omero.cmd.admin.UpdateSessionTimeoutRequestI
-
- currentMetadata_async(AMD_Search_currentMetadata, Current) - Method in class ome.services.blitz.impl.SearchI
-
- currentMetadataList_async(AMD_Search_currentMetadataList, Current) - Method in class ome.services.blitz.impl.SearchI
-
- CurrentPlatform - Class in ome.services.blitz.util
-
Test under which platform OMERO is currently running.
- CurrentPlatform() - Constructor for class ome.services.blitz.util.CurrentPlatform
-
- CurrentSessionsRequestI - Class in omero.cmd.admin
-
- CurrentSessionsRequestI(CurrentDetails, SessionManager, SessionProvider) - Constructor for class omero.cmd.admin.CurrentSessionsRequestI
-
- CurrentSessionsRequestI.Factory - Class in omero.cmd.admin
-
- currentUser(Current) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
- Gateway - Class in omero.gateway
-
A Gateway for simplifying access to an OMERO server
- Gateway(Logger) - Constructor for class omero.gateway.Gateway
-
Creates a new Gateway instance
- Gateway(Logger, CacheService) - Constructor for class omero.gateway.Gateway
-
Creates a new Gateway instance
- Gateway(Logger, CacheService, ExecutorService, boolean) - Constructor for class omero.gateway.Gateway
-
Creates a new Gateway instance
- GENERAL_ERROR - Static variable in class omero.gateway.model.SearchResultCollection
-
Some other error
- generateRepoUuid() - Method in class ome.services.blitz.repo.AbstractRepositoryI
-
Called when this repository is creating a new OriginalFile
repository object.
- generateRepoUuid() - Method in class ome.services.blitz.repo.ScriptRepositoryI
-
- generateScriptParams(long, boolean, Current) - Method in class omero.grid.ParamsHelper
-
Acquires an InteractiveProcessorPrx
and runs a ParseJob
.
- generateThumbnails(ThumbnailGenerationJob) - Method in class ome.services.blitz.repo.ManagedImportRequestI
-
- generateTiff_async(AMD_Exporter_generateTiff, Current) - Method in class ome.services.blitz.impl.ExporterI
-
- generateXml(MetadataRetrieve) - Method in class ome.services.blitz.impl.ExporterI
-
- generateXml_async(AMD_Exporter_generateXml, Current) - Method in class ome.services.blitz.impl.ExporterI
-
Generate XML and return the length
- geomTool - Variable in class ome.services.blitz.impl.RoiI
-
- GeomTool - Class in ome.services.roi
-
Strategy for handling the conversion between shapes
and
database-specific geometries.
- GeomTool(PixelData, SqlAction, SessionFactory) - Constructor for class ome.services.roi.GeomTool
-
- GeomTool(PixelData, SqlAction, SessionFactory, Executor, String) - Constructor for class ome.services.roi.GeomTool
-
- get() - Method in class ome.formats.importer.ImportConfig.FileValue
-
- get() - Method in class ome.formats.importer.ImportConfig.Value
-
Returns the generic type contained by this holder.
- get() - Method in class ome.services.blitz.util.ResultHolder
-
- get(PixelBuffer, int, int, int, int, int) - Method in class ome.services.roi.PixelData
-
- get(int) - Method in class omero.util.ReadOnlyByteArray
-
Reads the element at the index
position within this
slice.
- get(Identity) - Method in class omero.util.ServantHolder
-
- get_async(AMD_IQuery_get, String, long, Current) - Method in class ome.services.blitz.impl.QueryI
-
- getAbsolutePath() - Method in class ome.formats.importer.util.ErrorContainer
-
get path for file
- getAbsolutePath() - Method in class omero.gateway.model.FileData
-
Returns the absolute path.
- getAbsolutePaths() - Method in class omero.gateway.model.FilesetData
-
Returns the collections of absolute paths.
- getAcquisitionData() - Method in class omero.sys.ParametersI
-
- getAcquisitionDate() - Method in class omero.gateway.model.ImageData
-
Returns the acquisition date.
- getActionForStarting() - Method in class omero.cmd.graphs.Chgrp2I
-
- getActionForStarting() - Method in class omero.cmd.graphs.Chmod2I
-
- getActionForStarting() - Method in class omero.cmd.graphs.Chown2I
-
- getActionForStarting() - Method in class omero.cmd.graphs.Delete2I
-
- getActionForStarting() - Method in class omero.cmd.graphs.DuplicateI
-
- getActionForStarting() - Method in interface omero.cmd.graphs.WrappableRequest
-
- getActiveConnections_async(AMD_IShare_getActiveConnections, long, Current) - Method in class ome.services.blitz.impl.ShareI
-
- getAdapter() - Method in class omero.client
-
- getAdapter() - Method in class omero.cmd.SessionI
-
- getAdminPrivileges(SecurityContext) - Method in class omero.gateway.facility.AdminFacility
-
Get the logged in user's admin privileges
(see omero.model.enums)
- getAdminPrivileges(SecurityContext, ExperimenterData) - Method in class omero.gateway.facility.AdminFacility
-
Get the admin privileges of a certain user
(see omero.model.enums)
- getAdminPrivileges_async(AMD_IAdmin_getAdminPrivileges, Experimenter, Current) - Method in class ome.services.blitz.impl.AdminI
-
- getAdminService(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getAdminService(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the IAdminPrx
service.
- getAdminService(SecurityContext, boolean) - Method in class omero.gateway.Gateway
-
Returns the IAdminPrx
service.
- getAdminSession() - Method in interface ome.services.blitz.fire.Registry
-
Create a new AdminSessionPrx
with the
RegistryPrx
.
- getAdminSession() - Method in class ome.services.blitz.fire.Registry.Impl
-
- getAdminsWithPrivileges_async(AMD_IAdmin_getAdminsWithPrivileges, List<AdminPrivilege>, Current) - Method in class ome.services.blitz.impl.AdminI
-
- getAgent(Current) - Method in class ome.services.blitz.fire.SessionManagerI
-
- getAirPressure(UnitsPressure) - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns the air pressure.
- getAllChecksumAlgorithms() - Static method in class ome.services.blitz.util.ChecksumAlgorithmMapper
-
- getAllEnumerations_async(AMD_IPixels_getAllEnumerations, String, Current) - Method in class ome.services.blitz.impl.PixelsI
-
- getAllGuests_async(AMD_IShare_getAllGuests, long, Current) - Method in class ome.services.blitz.impl.ShareI
-
- getAllMembers_async(AMD_IShare_getAllMembers, long, Current) - Method in class ome.services.blitz.impl.ShareI
-
- getAllPixels() - Method in class omero.gateway.model.ImageData
-
Returns all the sets of pixels related to this image.
- getAllUsers_async(AMD_IShare_getAllUsers, long, Current) - Method in class ome.services.blitz.impl.ShareI
-
- getAlpha() - Method in class omero.gateway.model.WellData
-
Returns the alpha component of the color associated to the well,
or -1
.
- getAmplificationGain() - Method in class omero.gateway.model.DetectorData
-
Returns the amplification gain of the detector.
- getAnnotatedObject(IObject) - Static method in class omero.gateway.util.ModelMapper
-
Returns the annotated IObject related to the specified annotation.
- getAnnotationObject(IObject) - Static method in class omero.gateway.util.ModelMapper
-
Returns the annotation represented by the specified link
- getAnnotations(SecurityContext, DataObject) - Method in class omero.gateway.facility.MetadataFacility
-
- getAnnotations(SecurityContext, DataObject, List<Class<? extends AnnotationData>>, List<Long>) - Method in class omero.gateway.facility.MetadataFacility
-
- getAnnotations(SecurityContext, List<? extends DataObject>, List<Class<? extends AnnotationData>>, List<Long>) - Method in class omero.gateway.facility.MetadataFacility
-
- getAnnotations() - Method in class omero.gateway.model.DatasetData
-
Returns the annotations related to this dataset.
- getAnnotations() - Method in class omero.gateway.model.ImageData
-
Returns the annotations
- getAnnotationsCounts() - Method in class omero.gateway.model.DatasetData
-
Returns the number of annotations linked to the object, key: id of the
user, value: number of annotation.
- getAnnotationsCounts() - Method in class omero.gateway.model.ImageData
-
Returns the number of annotations linked to the object, key: id of the
user, value: number of annotation.
- getAnnotationsCounts() - Method in class omero.gateway.model.PlateAcquisitionData
-
Returns the number of annotations linked to the object, key: id of the
user, value: number of annotation.
- getAnnotationsCounts() - Method in class omero.gateway.model.PlateData
-
Returns the number of annotations linked to the object, key: id of the
user, value: number of annotation.
- getAnnotationsCounts() - Method in class omero.gateway.model.ProjectData
-
Returns the number of annotations linked to the object, key: id of the
user, value: number of annotation.
- getAnnotationsCounts() - Method in class omero.gateway.model.ScreenData
-
Returns the number of annotations linked to the object, key: id of the
user, value: number of annotation.
- getAnnotationsCounts() - Method in class omero.gateway.model.WellData
-
Returns the number of annotations linked to the object, key: id of the
user, value: number of annotation.
- getAnnotationTypes_async(AMD_ITypes_getAnnotationTypes, Current) - Method in class ome.services.blitz.impl.TypesI
-
- getApplicationName() - Method in class omero.gateway.LoginCredentials
-
- getAppTitle() - Method in class ome.formats.importer.ImportConfig
-
- getAppTitle() - Method in class ome.formats.importer.util.IniFileLoader
-
- getAppVersion() - Method in class ome.formats.importer.util.ErrorContainer
-
- getArguments() - Method in class omero.gateway.LoginCredentials
-
Returns the arguments if set as a read-only list.
- getAttachedFile() - Method in class omero.gateway.model.FileAnnotationData
-
Returns the file to upload to the server.
- getAuthoritativeContainerCache() - Method in interface ome.formats.model.IObjectContainerStore
-
Returns the current authoritative LSID container cache.
- getAuthoritativeContainerCache() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getAvailableAdminPrivileges(SecurityContext) - Method in class omero.gateway.facility.AdminFacility
-
Get all available admin privileges
- getAvailableFamilies_async(AMD_RenderingEngine_getAvailableFamilies, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getAvailableGroups(SecurityContext, ExperimenterData) - Method in class omero.gateway.facility.BrowseFacility
-
Retrieves the groups visible by the current experimenter.
- getAvailableModels_async(AMD_RenderingEngine_getAvailableModels, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getAvailableTables(SecurityContext, DataObject) - Method in class omero.gateway.facility.TablesFacility
-
Get all available tables for a the specified object
- getAwtTransform(AffineTransform) - Static method in class omero.model.SmartShape.Util
-
- getBatchSize_async(AMD_Search_getBatchSize, Current) - Method in class ome.services.blitz.impl.SearchI
-
- getBioFormatsVersion() - Method in class ome.formats.importer.ImportConfig
-
- getBit(byte[], int) - Method in class omero.gateway.model.MaskData
-
Sets the bit value in a byte array at position bit to be the value
value.
- getBitDepth_async(AMD_IPixels_getBitDepth, PixelsType, Current) - Method in class ome.services.blitz.impl.PixelsI
-
- getBlitzAdapter() - Method in class ome.services.blitz.util.BlitzConfiguration
-
- getBlitzManager() - Method in class ome.services.blitz.util.BlitzConfiguration
-
- getBlitzVerifier() - Method in class ome.services.blitz.util.BlitzConfiguration
-
- getBlue() - Method in class omero.gateway.model.WellData
-
Returns the blue component of the color associated to the well,
or -1
.
- getBooleanAnnotationCount() - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getBooleanAnnotationDescription(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getBooleanAnnotationID(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getBooleanAnnotationNamespace(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getBooleanAnnotationValue(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getBuffer() - Method in class ome.formats.importer.transfers.TransferState
-
(Not thread safe) Get a moderately large buffer for use in
reading/writing data.
- getBuffer(long) - Method in class ome.services.roi.PixelData
-
- getByGroup() - Method in class omero.gateway.model.SearchResultCollection
-
Get a perGroup map representation of the results
- getByGroup(Class<? extends DataObject>) - Method in class omero.gateway.model.SearchResultCollection
-
Get a perGroup map representation of the results, filtered by type
- getByName(String, Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getByName(String, Current, boolean) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getByPeriod_async(AMD_ITimeline_getByPeriod, List<String>, RTime, RTime, Parameters, boolean, Current) - Method in class ome.services.blitz.impl.TimelineI
-
- getByteWidth_async(AMD_RawPixelsStore_getByteWidth, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getByteWidth_async(AMD_RawPixelsStore_getByteWidth, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getC() - Method in class omero.gateway.model.ShapeData
-
Returns the channel. -1 if the shape applies to all channels of
the image.
- getCache() - Method in class omero.sys.ParametersI
-
- getCacheService() - Method in class omero.gateway.Gateway
-
- getCalibratedMagnification() - Method in class omero.gateway.model.ObjectiveData
-
Returns the objective's calibrated magnification factor.
- getCallContext() - Method in class ome.services.blitz.impl.commands.SaveI
-
- getCallContext() - Method in class ome.services.blitz.repo.ManagedImportRequestI
-
- getCallContext() - Method in class ome.services.blitz.repo.RawAccessRequestI
-
- getCallContext() - Method in class omero.cmd.admin.CurrentSessionsRequestI
-
- getCallContext() - Method in class omero.cmd.admin.ResetPasswordRequestI
-
- getCallContext() - Method in class omero.cmd.admin.UpdateSessionTimeoutRequestI
-
- getCallContext() - Method in class omero.cmd.basic.DoAllI
-
- getCallContext() - Method in class omero.cmd.basic.ListRequestsI
-
- getCallContext() - Method in class omero.cmd.basic.TimingI
-
- getCallContext() - Method in class omero.cmd.fs.FindPyramidsI
-
- getCallContext() - Method in class omero.cmd.fs.ManageImageBinariesI
-
- getCallContext() - Method in class omero.cmd.fs.OriginalMetadataRequestI
-
- getCallContext() - Method in class omero.cmd.fs.UsedFilesRequestI
-
- getCallContext() - Method in class omero.cmd.graphs.Chgrp2I
-
- getCallContext() - Method in class omero.cmd.graphs.Chmod2I
-
- getCallContext() - Method in class omero.cmd.graphs.Chown2I
-
- getCallContext() - Method in class omero.cmd.graphs.Delete2I
-
- getCallContext() - Method in class omero.cmd.graphs.DiskUsage2I
-
- getCallContext() - Method in class omero.cmd.graphs.DiskUsageI
-
Deprecated.
- getCallContext() - Method in class omero.cmd.graphs.DuplicateI
-
- getCallContext() - Method in class omero.cmd.graphs.FindChildrenI
-
- getCallContext() - Method in class omero.cmd.graphs.FindParentsI
-
- getCallContext() - Method in class omero.cmd.graphs.LegalGraphTargetsI
-
- getCallContext() - Method in class omero.cmd.graphs.SkipHeadI
-
- getCallContext() - Method in interface omero.cmd.IRequest
-
Returns the desired call context for this request.
- getCallContext() - Method in class omero.cmd.mail.SendEmailRequestI
-
- getCallContext() - Method in class omero.model.DetailsI
-
- getCategory() - Method in class omero.client
-
Returns the category which should be used for all callbacks
passed to the server.
- getChannel() - Method in class ome.formats.model.ChannelData
-
Returns the channel this channel data is for.
- getChannel(int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getChannelAcquisitionMode(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getChannelColor(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getChannelContrastMethod(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getChannelCount(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getChannelCurveCoefficient_async(AMD_RenderingEngine_getChannelCurveCoefficient, int, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getChannelData(SecurityContext, long) - Method in class omero.gateway.facility.MetadataFacility
-
- getChannelEmissionWavelength(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getChannelExcitationWavelength(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getChannelFamily_async(AMD_RenderingEngine_getChannelFamily, int, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getChannelFluor(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getChannelID(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getChannelIlluminationType(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getChannelIndex() - Method in class ome.formats.model.ChannelData
-
Returns the index of the channel this channel data is for.
- getChannelLabeling() - Method in class omero.gateway.model.ChannelData
-
Returns the label of the channel.
- getChannelLookupTable_async(AMD_RenderingEngine_getChannelLookupTable, int, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getChannelName(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getChannelNDFilter(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getChannelNoiseReduction_async(AMD_RenderingEngine_getChannelNoiseReduction, int, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getChannelPinholeSize(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getChannelPockelCellSetting(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getChannelSamplesPerPixel(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getChannelStats_async(AMD_RenderingEngine_getChannelStats, int, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getChannelWindowEnd_async(AMD_RenderingEngine_getChannelWindowEnd, int, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getChannelWindowStart_async(AMD_RenderingEngine_getChannelWindowStart, int, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getChecksum() - Method in class ome.formats.importer.transfers.TransferState
-
Get the digest string for the local file.
- getChecksumAlgorithm() - Method in class ome.formats.importer.ImportContainer
-
- getChecksumAlgorithm(String, Current) - Method in interface ome.services.blitz.repo.RepositoryDao
-
Retrieve the checksum algorithm of the given name.
- getChecksumAlgorithm(String, Current) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
- getChecksumAlgorithm(String) - Static method in class ome.services.blitz.util.ChecksumAlgorithmMapper
-
- getChecksumProvider() - Method in class ome.formats.importer.transfers.TransferState
-
Get the ChecksumProvider
passed to the constructor.
- getChecksumType(ChecksumAlgorithm) - Static method in class ome.services.blitz.util.ChecksumAlgorithmMapper
-
- getChecksumType(ChecksumAlgorithm) - Static method in class ome.services.blitz.util.ChecksumAlgorithmMapper
-
- getChildFromLink(IObject) - Static method in class omero.gateway.util.ModelMapper
-
Returns the child from the passed link.
- getChildOptionsPolicy(GraphPolicy, Collection<ChildOptionI>, Set<GraphPolicy.Ability>) - Static method in class omero.cmd.graphs.ChildOptionsPolicy
-
Adjust an existing graph traversal policy so that child objects may be included or excluded
regardless of if they are truly orphans.
- getClassesFromNames(Collection<String>) - Method in class omero.cmd.graphs.GraphHelper
-
Given class names provided by the user, find the corresponding set of actual classes.
- getCleanInstance() - Method in class omero.cmd.graphs.BaseGraphPolicyAdjuster
-
- getClient() - Method in class ome.formats.importer.util.ClientKeepAlive
-
- getClient() - Method in class omero.model.DetailsI
-
- getClientConfigDefaults_async(AMD_IConfig_getClientConfigDefaults, Current) - Method in class ome.services.blitz.impl.ConfigI
-
- getClientConfigValues_async(AMD_IConfig_getClientConfigValues, Current) - Method in class ome.services.blitz.impl.ConfigI
-
- getClientIds() - Method in class omero.util.ServantHolder
-
- getCloseStatementCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getCo2Percent() - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns the Co2 level, this is a percent value in the interval [0, 1].
- getCodomainMapContext_async(AMD_RenderingEngine_getCodomainMapContext, int, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getCol_async(AMD_RawPixelsStore_getCol, int, int, int, int, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getCol_async(AMD_RawPixelsStore_getCol, int, int, int, int, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getCollectionCount_async(AMD_IContainer_getCollectionCount, String, String, List<Long>, Parameters, Current) - Method in class ome.services.blitz.impl.ContainerI
-
- getCollectionFetchCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getCollectionLoadCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getCollectionRecreateCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getCollectionRemoveCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getCollectionRoleNames() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
Get the names of all collection roles
- getCollectionStatistics(String) - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
Get collection statistics per role
- getCollectionUpdateCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getColor(ChannelData) - Static method in class ome.formats.model.ColorsFactory
-
Determines the color usually associated to the specified
wavelength or explicitly defined for a particular channel.
- getColor(int) - Static method in class omero.gateway.model.ShapeSettingsData
-
Creates a Color
object from an RGBA integer value
- getColumn() - Method in class omero.gateway.model.WellData
-
Returns the column used to indicate the location of the well on the grid.
- getColumnIndex(Integer) - Method in class omero.gateway.model.TableResult
-
Returns the index of the column corresponding to the specified value.
- getColumns() - Method in class omero.gateway.model.TableData
-
Get the headers
- getColumnSequenceIndex() - Method in class omero.gateway.model.PlateData
-
Returns the index indicating how to label a column.
- getComment() - Method in class ome.formats.importer.util.ErrorContainer
-
- getCommentAnnotationCount() - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getCommentAnnotationDescription(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getCommentAnnotationID(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getCommentAnnotationNamespace(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getCommentAnnotationValue(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getCommentCount_async(AMD_IShare_getCommentCount, List<Long>, Current) - Method in class ome.services.blitz.impl.ShareI
-
- getComments_async(AMD_IShare_getComments, long, Current) - Method in class ome.services.blitz.impl.ShareI
-
- getCommentType() - Method in class ome.formats.importer.util.ErrorContainer
-
- getCommunicationLink(String) - Method in class ome.formats.importer.util.HtmlMessenger
-
Creates a client to communicate.
- getCommunicator() - Method in class ome.services.blitz.fire.Ring
-
- getCommunicator() - Method in interface ome.services.blitz.redirect.Redirector.Context
-
Active communicator for use by the
Redirector
instance.
- getCommunicator() - Method in class ome.services.blitz.repo.AbstractRepositoryI
-
- getCommunicator() - Method in class ome.services.blitz.repo.InternalRepositoryConfig
-
- getCommunicator() - Method in class ome.services.blitz.util.BlitzConfiguration
-
- getCommunicator() - Method in class omero.client
-
Returns the Communicator
for this instance or throws an
exception if null.
- getComponents() - Method in class ome.services.blitz.repo.path.FsFile
-
Get the path components of this instance.
- getCompression() - Method in class omero.gateway.LoginCredentials
-
Returns the compression level.
- getCompression() - Method in class omero.gateway.SecurityContext
-
Get the compression level (A percentage compression level from 1.00
(100%) to 0.01 (1%) (the default is 85%))
- getCompressionLevel_async(AMD_RenderingEngine_getCompressionLevel, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getConfig() - Method in class ome.formats.importer.OMEROWrapper
-
- getConfigDefaults_async(AMD_IConfig_getConfigDefaults, Current) - Method in class ome.services.blitz.impl.ConfigI
-
- getConfigService(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getConfigService(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the IConfigPrx
service.
- getConfigValue(String) - Method in class ome.formats.OMEROMetadataStoreClient
-
Retrieves a configuration value from the IConfig
service.
- getConfigValue_async(AMD_IConfig_getConfigValue, String, Current) - Method in class ome.services.blitz.impl.ConfigI
-
- getConfigValues_async(AMD_IConfig_getConfigValues, String, Current) - Method in class ome.services.blitz.impl.ConfigI
-
- getConnectCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getConnectionStatus() - Method in exception omero.gateway.exception.DSOutOfServiceException
-
- getConnector(SecurityContext) - Method in class omero.gateway.Gateway
-
- getConnector(SecurityContext, boolean, boolean) - Method in class omero.gateway.Gateway
-
Returns the connector corresponding to the passed context.
- getContainerCache() - Method in interface ome.formats.model.IObjectContainerStore
-
Returns the current container cache.
- getContainerCache() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getContainers() - Method in class ome.formats.importer.ImportCandidates
-
- getContainerService(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getContent() - Method in class omero.gateway.model.AnnotationData
-
Returns the content of the annotation.
- getContent() - Method in class omero.gateway.model.BooleanAnnotationData
-
Returns the textual content of the annotation.
- getContent() - Method in class omero.gateway.model.DoubleAnnotationData
-
Returns the value.
- getContent() - Method in class omero.gateway.model.FileAnnotationData
-
Returns the original file.
- getContent() - Method in class omero.gateway.model.LongAnnotationData
-
Returns the rating value.
- getContent() - Method in class omero.gateway.model.MapAnnotationData
-
- getContent() - Method in class omero.gateway.model.RatingAnnotationData
-
Returns the rating value.
- getContent() - Method in class omero.gateway.model.TagAnnotationData
-
Returns the textual content of the annotation.
- getContent() - Method in class omero.gateway.model.TermAnnotationData
-
Returns the textual content of the annotation.
- getContent() - Method in class omero.gateway.model.TextualAnnotationData
-
Returns the textual content of the annotation.
- getContent() - Method in class omero.gateway.model.TimeAnnotationData
-
Returns the timestamp of the annotation.
- getContent() - Method in class omero.gateway.model.XMLAnnotationData
-
Returns the content of the annotation.
- getContentAsString() - Method in class omero.gateway.model.AnnotationData
-
Returns the content of the annotation as a String
, which is
parsed on a Class
-by-Class
basis.
- getContentAsString() - Method in class omero.gateway.model.BooleanAnnotationData
-
Returns the textual content of the annotation.
- getContentAsString() - Method in class omero.gateway.model.DoubleAnnotationData
-
Returns the value as a string.
- getContentAsString() - Method in class omero.gateway.model.FileAnnotationData
-
Returns the absolute path to the file
- getContentAsString() - Method in class omero.gateway.model.LongAnnotationData
-
Returns the value as a string.
- getContentAsString() - Method in class omero.gateway.model.MapAnnotationData
-
- getContentAsString() - Method in class omero.gateway.model.RatingAnnotationData
-
Returns the rating value as a string.
- getContentAsString() - Method in class omero.gateway.model.TagAnnotationData
-
Returns the textual content of the annotation.
- getContentAsString() - Method in class omero.gateway.model.TermAnnotationData
-
Returns the textual content of the annotation.
- getContentAsString() - Method in class omero.gateway.model.TextualAnnotationData
-
Returns the textual content of the annotation.
- getContentAsString() - Method in class omero.gateway.model.TimeAnnotationData
-
Returns the time as a string.
- getContentAsString() - Method in class omero.gateway.model.XMLAnnotationData
-
Returns the textual content of the annotation.
- getContentMap_async(AMD_IShare_getContentMap, long, Current) - Method in class ome.services.blitz.impl.ShareI
-
- getContents_async(AMD_IShare_getContents, long, Current) - Method in class ome.services.blitz.impl.ShareI
-
- getContentSize_async(AMD_IShare_getContentSize, long, Current) - Method in class ome.services.blitz.impl.ShareI
-
- getContentSubList_async(AMD_IShare_getContentSubList, long, int, int, Current) - Method in class ome.services.blitz.impl.ShareI
-
- getContrastMethod() - Method in class omero.gateway.model.ChannelAcquisitionData
-
Returns the contrast method.
- getContrastMethod() - Method in class omero.gateway.model.ChannelData
-
Returns the contrast method.
- getContrastMethodAsEnum() - Method in class omero.gateway.model.ChannelData
-
Returns the contrast method enumeration value.
- getCorrection() - Method in class omero.gateway.model.ObjectiveData
-
Returns the correction value of the objective.
- getCorrectionCollar() - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns the correction collar of the objective.
- getCreated() - Method in class omero.gateway.model.DataObject
-
Returns the creation time of the object.
- getCreationEvent(Current) - Method in class omero.model.DetailsI
-
- getCurrent() - Method in class ome.services.blitz.util.FindServiceFactoryMessage
-
- getCurrent() - Method in class ome.services.blitz.util.UnregisterServantMessage
-
- getCurrentAdminPrivileges_async(AMD_IAdmin_getCurrentAdminPrivileges, Current) - Method in class ome.services.blitz.impl.AdminI
-
- getCurrentEventContext_async(AMD_StatefulServiceInterface_getCurrentEventContext, Current) - Method in class ome.services.blitz.impl.AbstractAmdServant
-
- getCurrentEventContext_async(AMD_StatefulServiceInterface_getCurrentEventContext, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getCustomAnnotationList() - Method in class ome.formats.importer.ImportContainer
-
The list of custom, user specified, annotations to link to all images
represented by this container.
- getCustomImageNaming() - Method in class ome.formats.importer.ImportConfig
-
- getCustomImageNaming() - Method in class ome.formats.importer.util.IniFileLoader
-
- getCutIn(UnitsLength) - Method in class omero.gateway.model.FilterData
-
Returns the cut in value or null
.
- getCutInTolerance(UnitsLength) - Method in class omero.gateway.model.FilterData
-
Returns the cut in tolerance value or null
.
- getCutOut(UnitsLength) - Method in class omero.gateway.model.FilterData
-
Returns the cut out value or null
.
- getCutOutTolerance(UnitsLength) - Method in class omero.gateway.model.FilterData
-
Returns the cut out tolerance value or null
.
- getData() - Method in class omero.gateway.model.TableData
-
Get the data in form Object['column index']['row data']
- getData() - Method in class omero.gateway.model.TableResult
-
Returns the data.
- getDatabaseTime_async(AMD_IConfig_getDatabaseTime, Current) - Method in class ome.services.blitz.impl.ConfigI
-
- getDatabaseUuid_async(AMD_IConfig_getDatabaseUuid, Current) - Method in class ome.services.blitz.impl.ConfigI
-
- getDataObjects(int, Class<? extends DataObject>) - Method in class omero.gateway.model.SearchResultCollection
-
Get DataObjects filtered by scope and type
- getDataObjects() - Method in class omero.gateway.model.TagAnnotationData
-
Returns the collection of data objects related to this tag.
- getDatasets(Project) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getDatasets(SecurityContext) - Method in class omero.gateway.facility.BrowseFacility
-
Loads all datasets
- getDatasets(SecurityContext, Collection<Long>) - Method in class omero.gateway.facility.BrowseFacility
-
Loads the datasets with the given ids
- getDatasets(SecurityContext, long) - Method in class omero.gateway.facility.BrowseFacility
-
Loads the datasets for a particular user
- getDatasets(SecurityContext, long, Collection<Long>) - Method in class omero.gateway.facility.BrowseFacility
-
Loads the datasets with the given ids which belong to a particular user
- getDatasets() - Method in class omero.gateway.model.ImageData
-
Returns the datasets containing this image.
- getDatasets() - Method in class omero.gateway.model.ProjectData
-
Returns the datasets contained in this project.
- getDatasetsWithoutProjects() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getDataValue() - Method in class omero.gateway.model.DoubleAnnotationData
-
Returns the value.
- getDataValue() - Method in class omero.gateway.model.LongAnnotationData
-
Returns the value.
- getDateType() - Method in class omero.gateway.model.SearchParameters
-
- getDebugLevel() - Method in class ome.formats.importer.ImportConfig
-
- getDebugLevel() - Method in class ome.formats.importer.util.IniFileLoader
-
Returns the level of debugging which should be set on
ImportConfig
Any value lower than null will not call configureDebug.
- getDefaultBatchSize() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getDefaultBlockSize() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getDefaultBlockSize() - Method in class omero.client
-
Returns the user-configured setting for "omero.block_size"
or DEFAULTBLOCKSIZE
if none is set.
- getDefaultGroup() - Method in class omero.gateway.model.ExperimenterData
-
Returns the default Group for this Experimenter
- getDefaultGroup_async(AMD_IAdmin_getDefaultGroup, long, Current) - Method in class ome.services.blitz.impl.AdminI
-
- getDefaultGroupLevel() - Method in class ome.formats.OMEROMetadataStoreClient
-
Deprecated.
- getDefaultGroupName() - Method in class ome.formats.OMEROMetadataStoreClient
-
Retrieve the default group's name
- getDefaultPixels() - Method in class omero.gateway.model.ImageData
-
Returns the default set of pixels.
- getDefaultSample() - Method in class omero.gateway.model.PlateData
-
Returns the currently selected field or 0
.
- getDefaultT_async(AMD_RenderingEngine_getDefaultT, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getDefaultZ_async(AMD_RenderingEngine_getDefaultZ, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getDescription(Current) - Method in class ome.services.blitz.repo.AbstractRepositoryI
-
- getDescription(long) - Method in class ome.services.blitz.repo.AbstractRepositoryI
-
- getDescription() - Method in class omero.gateway.model.AnnotationData
-
Retrieves the description
of the
underlying Annotation
instance.
- getDescription() - Method in class omero.gateway.model.DatasetData
-
Returns the description of the dataset.
- getDescription() - Method in class omero.gateway.model.FileAnnotationData
-
Returns the description of the annotation.
- getDescription() - Method in class omero.gateway.model.FileData
-
Returns the description of the file.
- getDescription() - Method in class omero.gateway.model.FolderData
-
Get the description of the Folder
- getDescription() - Method in class omero.gateway.model.GroupData
-
Returns the description of the group.
- getDescription() - Method in class omero.gateway.model.ImageData
-
Returns the description of the image.
- getDescription() - Method in class omero.gateway.model.PlateAcquisitionData
-
Returns the description of the plate acquisition.
- getDescription() - Method in class omero.gateway.model.PlateData
-
Returns the description of the plate.
- getDescription() - Method in class omero.gateway.model.ProjectData
-
Returns the description of the project.
- getDescription() - Method in class omero.gateway.model.ScreenData
-
Returns the description of the screen.
- getDescription() - Method in class omero.gateway.model.TableDataColumn
-
Get the description
- getDescription() - Method in class omero.gateway.model.XMLAnnotationData
-
Returns the description of the annotation.
- getDescription() - Method in class omero.gateway.util.TIFFFilter
-
Returns the description of the filter.
- getDetails() - Method in class omero.gateway.model.DataObject
-
Returns the details of the object.
- getDetector(int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getDetector() - Method in class omero.gateway.model.ChannelAcquisitionData
-
Returns the detector used for that channel.
- getDetectorBinningAsEnum() - Method in class omero.gateway.model.ChannelAcquisitionData
-
Returns the binning enumeration value.
- getDetectors() - Method in class omero.gateway.model.InstrumentData
-
Returns the collection of detectors.
- getDetectorSettingsBinning() - Method in class omero.gateway.model.ChannelAcquisitionData
-
Returns the Binning factor.
- getDetectorSettingsGain() - Method in class omero.gateway.model.ChannelAcquisitionData
-
Returns the gain set on the detector.
- getDetectorSettingsOffset() - Method in class omero.gateway.model.ChannelAcquisitionData
-
Returns the offset set on the detector.
- getDetectorSettingsReadOutRate(UnitsFrequency) - Method in class omero.gateway.model.ChannelAcquisitionData
-
Returns the Read out rate set on the detector.
- getDetectorSettingsVoltage(UnitsElectricPotential) - Method in class omero.gateway.model.ChannelAcquisitionData
-
Returns the voltage set on the detector.
- getDichroic() - Method in class omero.gateway.model.FilterSetData
-
Returns the dichroic if any.
- getDichroic() - Method in class omero.gateway.model.LightPathData
-
Returns the dichroic if any.
- getDichroics() - Method in class omero.gateway.model.InstrumentData
-
Returns the collection of dichroics.
- getDir() - Method in class ome.services.blitz.repo.FileMaker
-
- getDirectProxy() - Method in class ome.services.blitz.fire.Ring
-
Returns the proxy information for the local SessionManager
.
- getDirectProxy() - Method in interface ome.services.blitz.redirect.Redirector.Context
-
String representation of the proxy to the local node which may be
contacted to create new sessions.
- getDirectProxy() - Method in class ome.services.blitz.util.BlitzConfiguration
-
Return a direct proxy to the session manager in this object adapter.
- getDirname() - Method in class ome.services.blitz.repo.CheckedPath
-
Assuming this is a directory, return relative path plus name with a final
slash.
- getDiscriminator() - Method in class ome.formats.importer.targets.TemplateImportTarget
-
- getDisplayedFileName(String, Integer) - Static method in class omero.gateway.util.Utils
-
Returns the name to display for a file.
- getDoThumbnails() - Method in class ome.formats.importer.ImportContainer
-
Retrieves whether or not we are performing thumbnail creation upon
import completion.
- getDoubleAnnotationCount() - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getDoubleAnnotationDescription(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getDoubleAnnotationID(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getDoubleAnnotationNamespace(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getDoubleAnnotationValue(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getElement(int, Object) - Method in interface omero.gateway.cache.CacheService
-
Adds the specified element to the selected cache.
- getEllipseAnnotationRef(int, int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseFillColor(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseFillRule(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseFontFamily(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseFontSize(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseFontStyle(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseID(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseLocked(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseRadiusX(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseRadiusY(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseStrokeColor(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseStrokeDashArray(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseStrokeWidth(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseText(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseTheC(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseTheT(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseTheZ(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseTransform(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseX(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEllipseY(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getEmail() - Method in class ome.formats.importer.util.ErrorContainer
-
- getEmail() - Method in class omero.gateway.model.ExperimenterData
-
Returns the e-mail of the experimenter.
- getEmissionFilters() - Method in class omero.gateway.model.FilterSetData
-
Returns the collections of emission filters if any.
- getEmissionFilters() - Method in class omero.gateway.model.LightPathData
-
Returns the collections of emission filters if any.
- getEmissionWavelength(UnitsLength) - Method in class omero.gateway.model.ChannelData
-
Returns the emission wavelength of the channel.
- getEnd() - Method in class omero.gateway.model.SearchParameters
-
Returns the upper bound of the time interval.
- getEndTime() - Method in class omero.gateway.model.PlateAcquisitionData
-
Returns the time when the last image was collected.
- getEndTime() - Method in class omero.sys.ParametersI
-
Returns the value of the end time
parameter.
- getEntityDeleteCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getEntityFetchCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getEntityInsertCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getEntityLoadCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getEntityNames() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
Get the names of all entities
- getEntityStatistics(String) - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
find entity statistics per name
- getEntityUpdateCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getEnumeration(Class<T>, String, boolean) - Method in interface ome.formats.enums.EnumerationProvider
-
Retrieves an enumeration.
- getEnumeration(Class<T>, String, boolean) - Method in class ome.formats.enums.IQueryEnumProvider
-
- getEnumeration_async(AMD_IPixels_getEnumeration, String, String, Current) - Method in class ome.services.blitz.impl.PixelsI
-
- getEnumeration_async(AMD_ITypes_getEnumeration, String, String, Current) - Method in class ome.services.blitz.impl.TypesI
-
- getEnumerationProvider() - Method in class ome.formats.OMEROMetadataStoreClient
-
Retrieves the active enumeration provider.
- getEnumerations(Class<T>) - Method in interface ome.formats.enums.EnumerationProvider
-
Retrieves all enumerations of a specific type.
- getEnumerations(Class<T>) - Method in class ome.formats.enums.IQueryEnumProvider
-
- getEnumerationsWithEntries_async(AMD_ITypes_getEnumerationsWithEntries, Current) - Method in class ome.services.blitz.impl.TypesI
-
- getEnumerationTypes_async(AMD_ITypes_getEnumerationTypes, Current) - Method in class ome.services.blitz.impl.TypesI
-
- getError() - Method in class ome.formats.importer.util.ErrorContainer
-
- getError() - Method in class omero.gateway.model.SearchResultCollection
-
Get the error code
- getEvent(Current) - Method in class ome.services.blitz.fire.SessionManagerI
-
- getEventContext() - Method in class ome.services.blitz.impl.ServiceFactoryI
-
Doesn't take current into account
- getEventContext(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
Takes current into account
- getEventContext(Current) - Method in interface ome.services.blitz.repo.RepositoryDao
-
Look up information for the current session as specified in the ctx
field of the current.
- getEventContext(Current) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
- getEventContext() - Method in class omero.cmd.Helper
-
Provides an EventContext
instance without reloading the session,
via LocalAdmin.getEventContextQuiet()
.
- getEventContext() - Method in class omero.model.DetailsI
-
- getEventContext_async(AMD_IAdmin_getEventContext, Current) - Method in class ome.services.blitz.impl.AdminI
-
- getEventLogsByPeriod_async(AMD_ITimeline_getEventLogsByPeriod, RTime, RTime, Parameters, Current) - Method in class ome.services.blitz.impl.TimelineI
-
- getEvents_async(AMD_IShare_getEvents, long, Experimenter, RTime, RTime, Current) - Method in class ome.services.blitz.impl.ShareI
-
- getExcitationFilters() - Method in class omero.gateway.model.FilterSetData
-
Returns the collections of excitation filters if any.
- getExcitationFilters() - Method in class omero.gateway.model.LightPathData
-
Returns the collections of excitation filters if any.
- getExcitationWavelength(UnitsLength) - Method in class omero.gateway.model.ChannelData
-
Returns the excitation wavelength of the channel.
- getExecutor() - Method in class omero.cmd.SessionI
-
- getExperimenter() - Method in class omero.gateway.SecurityContext
-
Returns the id of the experimenter.
- getExperimenter() - Method in class omero.sys.ParametersI
-
Returns the value of the experimenter
parameter.
- getExperimenter_async(AMD_IAdmin_getExperimenter, long, Current) - Method in class ome.services.blitz.impl.AdminI
-
- getExperimenterData() - Method in class omero.gateway.SecurityContext
-
Returns the experimenter.
- getExperimenterID() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getExperimenters() - Method in class omero.gateway.model.GroupData
-
Returns the experimenters contained in this group.
- getExporterService(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the ExporterPrx
service.
- getExtendedMessage() - Method in exception omero.gateway.exception.RenderingServiceException
-
Prints the stack trace and returns it as a string.
- getExtension() - Method in class omero.gateway.util.TIFFFilter
-
Returns the extension of the filter.
- getExternalDescription() - Method in class omero.gateway.model.WellData
-
Returns the external description of the well.
- getExternalIdentifier() - Method in class omero.gateway.model.PlateData
-
Returns the external identifier of the plate.
- getExternalInfo(Current) - Method in class omero.model.DetailsI
-
- getExtra() - Method in class ome.formats.importer.util.ErrorContainer
-
- getFacility(Class<T>, Gateway) - Static method in class omero.gateway.facility.Facility
-
Get a reference to a certain Facility
- getFacility(Class<T>) - Method in class omero.gateway.Gateway
-
Get a
Facility
to perform further operations with the server
- getFactory(String, Current) - Method in class ome.services.blitz.repo.PublicRepositoryI
-
- getFailedFiles() - Method in exception ome.formats.importer.transfers.CleanupFailure
-
- getFailureClass() - Method in exception ome.formats.enums.EnumerationException
-
- getFailureClass() - Method in exception ome.formats.model.ModelException
-
Returns the class that was used during a failed instantiation.
- getFeedbackUrl() - Method in class ome.formats.importer.ImportConfig
-
- getFilament(int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getFile() - Method in class ome.formats.importer.ImportContainer
-
- getFile() - Method in class ome.formats.importer.transfers.TransferState
-
Return the target file passed to the constructor.
- getFile(long, Current, String) - Method in interface ome.services.blitz.repo.RepositoryDao
-
Get an
FsFile
object based on its ID.
- getFile(long, Current, String) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
- getFile(ServiceFactory) - Method in class ome.services.scripts.ScriptFinder
-
- getFileBuffer(String) - Method in class ome.services.blitz.repo.CheckedPath
-
Get a FileBuffer
corresponding to this instance.
- getFileFormat() - Method in class ome.formats.importer.util.ErrorContainer
-
get the file format for import
- getFileFormat() - Method in class omero.gateway.model.FileAnnotationData
-
Returns the format of the uploaded file.
- getFileID() - Method in class omero.gateway.model.FileAnnotationData
-
Returns the id of the file.
- getFileID() - Method in class omero.gateway.model.ROIResult
-
Returns the id of the file.
- getFileId_async(AMD_RawFileStore_getFileId, Current) - Method in class ome.services.blitz.impl.RawFileStoreI
-
- getFileKind() - Method in class omero.gateway.model.FileAnnotationData
-
Returns a user readable description of the file.
- getFileName() - Method in class omero.gateway.model.FileAnnotationData
-
Returns the name of the file.
- getFilePath(OriginalFile, Current) - Method in class ome.services.blitz.repo.AbstractRepositoryI
-
- getFilePath(OriginalFile, Current) - Method in class ome.services.blitz.repo.InternalRepositoryI
-
- getFilePath(OriginalFile, Current) - Method in class ome.services.blitz.repo.LegacyRepositoryI
-
TODO CACHING
- getFilePath(OriginalFile, Current) - Method in class ome.services.blitz.repo.ScriptRepositoryI
-
- getFilePath(OriginalFile, Current) - Method in class ome.services.blitz.repo.TemporaryRepositoryI
-
- getFilePath() - Method in class omero.gateway.model.FileAnnotationData
-
Returns the absolute path to the file.
- getFilePathRestrictions(String...) - Static method in enum ome.services.blitz.repo.path.FilePathRestrictionInstance
-
Get a set of rules by which local files may not be named on the file-system,
formed by combining the rules of the given names with rules against control characters.
- getFilePathRestrictions(FilePathRestrictionInstance...) - Static method in enum ome.services.blitz.repo.path.FilePathRestrictionInstance
-
Get a set of rules by which local files may not be named on the file-system,
formed by combining the given rules identifiers with rules against control characters.
- getFileRepo(OriginalFile) - Method in class ome.services.blitz.repo.AbstractRepositoryI
-
- getFiles() - Method in class ome.formats.importer.util.ErrorContainer
-
- getFileset() - Method in class ome.services.blitz.repo.ManagedImportProcessI
-
- getFileset() - Method in interface ome.services.blitz.repo.ProcessContainer.Process
-
- getFilesetId() - Method in class omero.gateway.model.ImageData
-
Returns the ID of the fileset to which this image belongs.
- getFileSize() - Method in class omero.gateway.model.FileAnnotationData
-
Returns the size of the file.
- getFileType() - Method in class ome.formats.importer.util.ErrorContainer
-
- getFill() - Method in class omero.gateway.model.ShapeSettingsData
-
Returns the fill color.
- getFillRule() - Method in class omero.gateway.model.ShapeSettingsData
-
Returns the fill rule.
- getFilters() - Method in class omero.gateway.model.InstrumentData
-
Returns the collection of filters.
- getFilterSet() - Method in class ome.formats.model.ChannelData
-
Returns the filter set for the logical channel of this channel data.
- getFilterSet(int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getFilterSet() - Method in class omero.gateway.model.ChannelAcquisitionData
-
Returns the filter set or null
.
- getFilterSet() - Method in class omero.gateway.model.OTFData
-
Returns the associated filter set.
- getFilterSetEmissionFilter() - Method in class ome.formats.model.ChannelData
-
Returns the filter set's emission filter for the logical channel of
this channel data.
- getFilterSetExcitationFilter() - Method in class ome.formats.model.ChannelData
-
Returns the filter set's excitation filter for the logical channel of
this channel data.
- getFilterSets() - Method in class omero.gateway.model.InstrumentData
-
Returns the collection of filter sets.
- getFilterWheel() - Method in class omero.gateway.model.FilterData
-
Returns the wheel.
- getFirstName() - Method in class omero.gateway.model.ExperimenterData
-
Returns the first name of the experimenter.
- getFluor() - Method in class omero.gateway.model.ChannelData
-
Returns the Fluorophore used.
- getFlushCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getFolderAsContainerName(File) - Static method in class omero.gateway.util.Utils
-
Returns the name as container if option is on.
- getFolderPathString() - Method in class omero.gateway.model.FolderData
-
Returns the folder path as string
- getFolderPathString(char) - Method in class omero.gateway.model.FolderData
-
Returns the folder path as string using a custom path separator
- getFolders(SecurityContext) - Method in class omero.gateway.facility.BrowseFacility
-
Get all folders the logged in user has access to.
- getFolders(SecurityContext, Collection<Long>) - Method in class omero.gateway.facility.BrowseFacility
-
Get the folders for the given folder ids.
- getFolders(SecurityContext, long) - Method in class omero.gateway.facility.BrowseFacility
-
Get the folders which belong to the given user.
- getFolders() - Method in class omero.gateway.model.ROIData
-
Get the folders this ROI is part of
- getFolders() - Method in class omero.gateway.model.ROIResult
-
Get the available folders
- getFont() - Method in class omero.gateway.model.ShapeSettingsData
-
Get the style of the font for Shape.
- getFontFamily() - Method in class omero.gateway.model.ShapeSettingsData
-
Returns the stroke.
- getFontSize(UnitsLength) - Method in class omero.gateway.model.ShapeSettingsData
-
Returns the stroke.
- getFontStyle() - Method in class omero.gateway.model.ShapeSettingsData
-
Returns the font style.
- getForceFileArchiveOn() - Method in class ome.formats.importer.ImportConfig
-
- getForceFileArchiveOn() - Method in class ome.formats.importer.util.IniFileLoader
-
- getFormat() - Method in class omero.gateway.model.ImageData
-
Returns the format of the image.
- getForumUrl() - Method in class ome.formats.importer.ImportConfig
-
- getForumUrl() - Method in class ome.formats.importer.util.IniFileLoader
-
- getFreeSpaceInKilobytes_async(AMD_IRepositoryInfo_getFreeSpaceInKilobytes, Current) - Method in class ome.services.blitz.impl.RepositoryInfoI
-
- getFsFileFromClientFile(File, int) - Method in class ome.services.blitz.repo.path.ClientFilePathTransformer
-
Given a client-local File
, and a path component depth,
returns the corresponding repository path.
- getFsFileFromServerFile(File) - Method in class ome.services.blitz.repo.path.ServerFilePathTransformer
-
Given a server-local File
, returns the corresponding repository path.
- getFullFsPath() - Method in class ome.services.blitz.repo.CheckedPath
-
The full path of the entity to which this path corresponds.
- getGain() - Method in class omero.gateway.model.DetectorData
-
Returns the gain of the detector.
- getGlobalMax() - Method in class omero.gateway.model.ChannelData
-
Returns the global maximum of the channel i.e. the maximum of all maxima.
- getGlobalMin() - Method in class omero.gateway.model.ChannelData
-
Returns the global minimum of the channel i.e. the minimum of all minima.
- getGraphPathBean() - Method in class omero.cmd.graphs.GraphRequestFactory
-
- getGraphType(Class<? extends DataObject>) - Static method in class omero.gateway.util.PojoMapper
-
Returns the name of the data type which has to used for Graph actions,
see
Requests
- getGreen() - Method in class omero.gateway.model.WellData
-
Returns the green component of the color associated to the well,
or -1
.
- getGridColumns() - Method in class omero.gateway.facility.TablesFacilityHelper
-
- getGridQuery() - Method in interface ome.services.blitz.fire.Registry
-
Returns an active QueryPrx
or null if none is available.
- getGridQuery() - Method in class ome.services.blitz.fire.Registry.Impl
-
- getGroup(Current) - Method in class ome.services.blitz.fire.SessionManagerI
-
- getGroup() - Method in class ome.services.blitz.repo.ManagedImportProcessI
-
- getGroup() - Method in interface ome.services.blitz.repo.ProcessContainer.Process
-
- getGroup(Current) - Method in class omero.model.DetailsI
-
- getGroup() - Method in class omero.sys.ParametersI
-
Returns the value of the group
parameter.
- getGroup_async(AMD_IAdmin_getGroup, long, Current) - Method in class ome.services.blitz.impl.AdminI
-
- getGroupID() - Method in class omero.gateway.LoginCredentials
-
Returns the OMERO group identifier.
- getGroupId() - Method in class omero.gateway.model.DataObject
-
Returns the id of the group.
- getGroupId() - Method in class omero.gateway.model.ExperimenterData
-
Overridden to return the id of the default group.
- getGroupId() - Method in class omero.gateway.model.GroupData
-
Overridden to return the id of the object.
- getGroupId() - Method in class omero.gateway.model.SearchParameters
-
- getGroupId() - Method in class omero.gateway.model.SearchResult
-
Get the group id of the object
- getGroupID() - Method in class omero.gateway.SecurityContext
-
Returns the identifier of the group.
- getGroups() - Method in class omero.gateway.model.ExperimenterData
-
Returns the groups the experimenter is a member of.
- getHandle(Current) - Method in class ome.services.blitz.repo.ManagedImportProcessI
-
- getHandler(Class<? extends IObject>) - Method in class ome.formats.enums.handler.EnumHandlerFactory
-
Returns an enumeration handler for a specific enumeration type.
- getHandler(Class<? extends IObject>) - Method in class ome.formats.model.handler.ModelObjectHandlerFactory
-
Returns an enumeration handler for a specific enumeration type.
- getHeaders() - Method in class omero.gateway.model.TableResult
-
Returns the name of the columns.
- getHeadersDescription() - Method in class omero.gateway.model.TableResult
-
Returns the name of the columns.
- getHeight() - Method in class omero.gateway.model.MaskData
-
Returns the height of the mask.
- getHeight() - Method in class omero.gateway.model.RectangleData
-
Returns the height untransformed rectangle.
- getHierarchy(SecurityContext, Class, long) - Method in class omero.gateway.facility.BrowseFacility
-
Retrieves hierarchy trees rooted by a given node.
- getHierarchy(SecurityContext, Class, List<Long>, Parameters) - Method in class omero.gateway.facility.BrowseFacility
-
Retrieves hierarchy trees rooted by a given node i.e. the requested node
as root and all of its descendants.
- getHistogram(SecurityContext, PixelsData, int[], int, int) - Method in class omero.gateway.facility.RawDataFacility
-
Get the histogram data for the given image, using default 256 bins and
the channels global min/max for the histogram range.
- getHistogram(SecurityContext, PixelsData, int[], int, boolean, PlaneDef) - Method in class omero.gateway.facility.RawDataFacility
-
Get the histogram data for the given image.
- getHistogram(int[], int, boolean, PlaneDef) - Method in class omero.gateway.rnd.DataSink
-
Get the histogram data for the given image.
- getHistogram_async(AMD_RawPixelsStore_getHistogram, int[], int, boolean, PlaneDef, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getHistogram_async(AMD_RawPixelsStore_getHistogram, int[], int, boolean, PlaneDef, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getHolder() - Method in class ome.services.blitz.util.UnregisterServantMessage
-
- getHomeUrl() - Method in class ome.formats.importer.ImportConfig
-
- getHomeUrl() - Method in class ome.formats.importer.util.IniFileLoader
-
- getHostname() - Method in class omero.gateway.ServerInformation
-
Return the hostname.
- getHumidity() - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns the humidity level, this is a value in the interval [0, 1].
- getHypercube_async(AMD_RawPixelsStore_getHypercube, List<Integer>, List<Integer>, List<Integer>, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getHypercube_async(AMD_RawPixelsStore_getHypercube, List<Integer>, List<Integer>, List<Integer>, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getId() - Method in class ome.services.blitz.repo.CheckedPath
-
- getId() - Method in class omero.gateway.model.DataObject
-
Returns the database id of the IObject or -1
if
null
- getIdentity() - Method in class ome.services.blitz.util.FindServiceFactoryMessage
-
- getIdentity(String) - Method in class omero.cmd.SessionI
-
- getIdentity(String) - Method in class omero.util.ServantHolder
-
Constructs an Identity
from the current session
and from the given String
which for
stateful services are defined by UUIDs.
- getIgnoreTypePolicy(GraphPolicy, Collection<Class<? extends IObject>>) - Static method in class omero.cmd.graphs.IgnoreTypePolicy
-
Deprecated.
Adjust an existing graph traversal policy so that objects of certain types may be ignored.
- getIllumination() - Method in class omero.gateway.model.ChannelAcquisitionData
-
Returns the illumination.
- getIllumination() - Method in class omero.gateway.model.ChannelData
-
Returns the illumination.
- getIlluminationAsEnum() - Method in class omero.gateway.model.ChannelData
-
Returns the illumination enumeration value.
- getImage(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getImage(SecurityContext, long) - Method in class omero.gateway.facility.BrowseFacility
-
Loads a image
- getImage(SecurityContext, long, ParametersI) - Method in class omero.gateway.facility.BrowseFacility
-
Loads a image
- getImage() - Method in class omero.gateway.model.PixelsData
-
Returns the image linked to this pixels' set.
- getImage() - Method in class omero.gateway.model.ROIData
-
Returns the image for the ROI.
- getImage() - Method in class omero.gateway.model.WellSampleData
-
Returns the image related to that sample if any.
- getImageAcquisitionData(SecurityContext, long) - Method in class omero.gateway.facility.MetadataFacility
-
- getImageAcquisitionDate(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getImageAnnotationRef(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getImageAnnotationRefCount(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getImageCount() - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getImageDescription(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getImageID(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getImageIds() - Method in class omero.gateway.model.FilesetData
-
Returns the collection of images related to the file set.
- getImageName(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getImageNames() - Method in class ome.formats.ImageNameMetadataStore
-
Retrieves the current map of Image names held.
- getImageReader() - Method in class ome.formats.importer.OMEROWrapper
-
Return the base image reader
- getImageROIRef(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getImageROIRefCount(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getImages(SecurityContext, Collection<Long>) - Method in class omero.gateway.facility.BrowseFacility
-
Loads the images with the given ids
- getImages(SecurityContext, Collection<Long>, ParametersI) - Method in class omero.gateway.facility.BrowseFacility
-
Loads the images with the given ids
- getImages(SecurityContext, long, Collection<Long>) - Method in class omero.gateway.facility.BrowseFacility
-
Loads the images for a particular user
- getImages() - Method in class omero.gateway.model.DatasetData
-
Returns a set of images contained in the dataset.
- getImages_async(AMD_IContainer_getImages, String, List<Long>, Parameters, Current) - Method in class ome.services.blitz.impl.ContainerI
-
- getImagesByOptions_async(AMD_IContainer_getImagesByOptions, Parameters, Current) - Method in class ome.services.blitz.impl.ContainerI
-
- getImagesBySplitFilesets_async(AMD_IContainer_getImagesBySplitFilesets, Map<String, List<Long>>, Parameters, Current) - Method in class ome.services.blitz.impl.ContainerI
-
- getImagesForDatasets(SecurityContext, Collection<Long>) - Method in class omero.gateway.facility.BrowseFacility
-
Load all images belonging to particular datasets
- getImagesForProjects(SecurityContext, Collection<Long>) - Method in class omero.gateway.facility.BrowseFacility
-
Load all images belonging to particular projects
- getImagingEnvironment(int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getImagingEnvironmentId() - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns the id of the StageLabel
or -1
if not already linked to the image.
- getImmersion() - Method in class omero.gateway.model.ObjectiveData
-
Returns the immersion value of the objective.
- getImplicitContext() - Method in class omero.client
-
Returns the ImplicitContext
which defines what properties
will be sent on every method invocation.
- getImportResponse() - Method in class ome.formats.importer.ImportLibrary.ImportCallback
-
- getImportSettings(Current) - Method in class ome.services.blitz.repo.ManagedImportProcessI
-
- getImportStore(SecurityContext) - Method in class omero.gateway.Gateway
-
Creates or recycles the import store.
- getImportStore(SecurityContext, String) - Method in class omero.gateway.Gateway
-
Creates or recycles the import store.
- getIndex() - Method in class ome.formats.importer.util.ErrorContainer
-
get the index for this error container
- getIndex() - Method in exception omero.gateway.exception.RenderingServiceException
-
Returns the index.
- getIndex() - Method in class omero.gateway.model.ChannelData
-
Returns the channel's index.
- getIndex() - Method in class omero.gateway.model.ImageData
-
Returns the index of the image within the multi-images file.
- getIndex() - Method in class omero.gateway.model.TableDataColumn
-
Get the index
- getIniVersionNumber() - Method in class ome.formats.importer.ImportConfig
-
- getInput(String) - Method in class omero.client
-
Retrieves an item from the "input" shared (session) memory.
- getInput_async(AMD_ISession_getInput, String, String, Current) - Method in class ome.services.blitz.impl.SessionI
-
- getInputKeys() - Method in class omero.client
-
Returns a list of keys for all items in the "input" shared (session)
memory
- getInputKeys_async(AMD_ISession_getInputKeys, String, Current) - Method in class ome.services.blitz.impl.SessionI
-
- getInputs_async(AMD_ISession_getInputs, String, Current) - Method in class ome.services.blitz.impl.SessionI
-
- getInserted() - Method in class omero.gateway.model.ImageData
-
Returns the insertion time of the image.
- getInstance(Class<T>) - Method in class ome.formats.model.BlitzInstanceProvider
-
- getInstance(Class<T>) - Method in interface ome.formats.model.InstanceProvider
-
Retrieves an instance.
- getInstanceProvider() - Method in class ome.formats.OMEROMetadataStoreClient
-
Retrieves the active instance provider.
- getInstitution() - Method in class omero.gateway.model.ExperimenterData
-
Returns the institution where the experimenter works.
- getInstrumentId() - Method in class omero.gateway.model.ImageData
-
Returns the id of the instrument if any.
- getInternalServiceFactory(String, Long, int, int, String) - Method in interface ome.services.blitz.fire.Registry
-
Try to return a ServiceFactory from the grid.
- getInternalServiceFactory(String, Long, int, int, String) - Method in class ome.services.blitz.fire.Registry.Impl
-
- getIObjectContainer(Class<? extends IObject>, LinkedHashMap<Index, Integer>) - Method in interface ome.formats.model.IObjectContainerStore
-
Retrieves an IObject container for a given class and location within the
OME-XML data model.
- getIObjectContainer(Class<? extends IObject>, LinkedHashMap<Index, Integer>) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getIObjectContainers(Class<? extends IObject>) - Method in interface ome.formats.model.IObjectContainerStore
-
Retrieves all IObject containers of a given class.
- getIObjectContainers(Class<? extends IObject>) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getIP(Current) - Method in class ome.services.blitz.fire.SessionManagerI
-
- getIQuery() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getIsSPW() - Method in class ome.formats.importer.ImportContainer
-
Return true if this import container contains a Screen/Plate/Well image
group.
- getIterator() - Method in class omero.gateway.model.ROIData
-
Returns the iterator of the collection of the map.
- getJavaClasspath() - Method in class ome.formats.importer.util.ErrorContainer
-
- getJavaVersion() - Method in class ome.formats.importer.util.ErrorContainer
-
- getJob(Current) - Method in class ome.services.blitz.impl.ScriptProcessI
-
- getJob(Current) - Method in class omero.grid.InteractiveProcessorI
-
- getJob_async(AMD_JobHandle_getJob, Current) - Method in class ome.services.blitz.impl.JobHandleI
-
- getKeepAlive() - Method in class ome.formats.OMEROMetadataStoreClient
-
Returns clientKeepAlive created in store
- getKind() - Method in class omero.gateway.model.LightSourceData
-
Returns the kind of light source.
- getLabel() - Method in class omero.gateway.model.PlateAcquisitionData
-
Returns the label associated to the plate acquisition.
- getLabelAnnotationRef(int, int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLabelFillColor(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLabelFillRule(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLabelFontFamily(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLabelFontSize(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLabelFontStyle(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLabelID(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLabelLocked(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLabelName() - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns the name of the stage label.
- getLabelStrokeColor(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLabelStrokeDashArray(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLabelStrokeWidth(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLabelText(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLabelTheC(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLabelTheT(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLabelTheZ(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLabelTransform(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLabelX(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLabelY(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLaser(int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getLaserFrequencyMultiplication() - Method in class omero.gateway.model.LightSourceData
-
Returns the frequency multiplication of the laser.
- getLaserMedium() - Method in class omero.gateway.model.LightSourceData
-
Returns the laser's medium.
- getLaserPockelCell() - Method in class omero.gateway.model.LightSourceData
-
Returns the pockel cell flag of the laser.
- getLaserPulse() - Method in class omero.gateway.model.LightSourceData
-
Returns the pulse of the laser.
- getLaserPump() - Method in class omero.gateway.model.LightSourceData
-
Returns the pump.
- getLaserRepetitionRate(UnitsFrequency) - Method in class omero.gateway.model.LightSourceData
-
Returns the repetition rate (Hz) if the laser is repetitive.
- getLaserTuneable() - Method in class omero.gateway.model.LightSourceData
-
Returns the value of the tuneable
field or null
if no value set.
- getLaserWavelength(UnitsLength) - Method in class omero.gateway.model.LightSourceData
-
Returns the laser's wavelength.
- getLastModified() - Method in class omero.gateway.model.AnnotationData
-
Returns the time when the annotation was last modified.
- getLastName() - Method in class omero.gateway.model.ExperimenterData
-
Returns the last name of the experimenter.
- getLdapService(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getLeaderOfGroupIds_async(AMD_IAdmin_getLeaderOfGroupIds, Experimenter, Current) - Method in class ome.services.blitz.impl.AdminI
-
- getLeaders() - Method in class omero.gateway.model.GroupData
-
Returns the experimenters contained in this group.
- getLeaves() - Method in class omero.sys.ParametersI
-
- getLegalTargets(Class<R>) - Method in class omero.cmd.graphs.GraphRequestFactory
-
Get the legal target object classes for the given request.
- getLength() - Method in class ome.formats.importer.transfers.TransferState
-
- getLensNA() - Method in class omero.gateway.model.ObjectiveData
-
Returns the objective's LensNA.
- getLightEmittingDiode(int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getLightPath() - Method in class omero.gateway.model.ChannelAcquisitionData
-
Returns the light path or null
.
- getLightPathEmissionFilters() - Method in class ome.formats.model.ChannelData
-
Returns the collection of emission filters in the light path.
- getLightPathExcitationFilters() - Method in class ome.formats.model.ChannelData
-
Returns the collection of excitation filters in the light path.
- getLightSettingsAttenuation() - Method in class omero.gateway.model.ChannelAcquisitionData
-
Returns the attenuation of the light source, percent value
between 0 and 1.
- getLightSettingsWavelength(UnitsLength) - Method in class omero.gateway.model.ChannelAcquisitionData
-
Returns the wavelength of the light source.
- getLightSource() - Method in class ome.formats.model.ChannelData
-
Returns the light source for the light source settings of this channel
data.
- getLightSource() - Method in class omero.gateway.model.ChannelAcquisitionData
-
Returns the source of light.
- getLightSourceModel() - Method in class omero.gateway.model.LightSourceData
-
Returns the model of the light source.
- getLightSources() - Method in class omero.gateway.model.InstrumentData
-
Returns the collection of light sources.
- getLightSourceSettings() - Method in class ome.formats.model.ChannelData
-
Returns the light source settings for the logical channel of this
channel data.
- getLimit() - Method in class omero.sys.ParametersI
-
Returns the value of the limit
parameter.
- getLine(int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getLine() - Method in class ome.services.blitz.repo.FileMaker
-
- getLineAnnotationRef(int, int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineFillColor(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineFillRule(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineFontFamily(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineFontSize(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineFontStyle(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineID(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineLocked(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineMarkerEnd(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineMarkerStart(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineStrokeColor(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineStrokeDashArray(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineStrokeWidth(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineText(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineTheC(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineTheT(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineTheZ(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineTransform(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineX1(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineX2(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineY1(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLineY2(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getListAnnotation(int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getLocalLocation(OriginalFile, OriginalFile) - Method in class ome.formats.importer.transfers.AbstractExecFileTransfer
-
Build a path of the form "root.path/root.name/file.path/file.name".
- getLogFile() - Method in class ome.formats.importer.ImportConfig
-
- getLogFile() - Method in class ome.formats.importer.util.IniFileLoader
-
- getLogFile() - Method in class ome.services.blitz.repo.ManagedImportLocationI
-
Return the server-side
CheckedPath
instance which can be used
for writing a log file for a fileset.
- getLogFile() - Method in interface omero.log.Logger
-
Returns the log file.
- getLogFile() - Method in class omero.log.NullLogger
-
- getLogFile() - Method in class omero.log.SimpleLogger
-
- getLoggedInUser() - Method in class omero.gateway.Gateway
-
Get the currently logged in user
- getLogger() - Method in class omero.gateway.Gateway
-
- getLogicalChannel() - Method in class ome.formats.model.ChannelData
-
Returns the logical channel for this channel data.
- getLongAnnotation(int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getLongAnnotationCount() - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLongAnnotationDescription(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLongAnnotationID(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLongAnnotationNamespace(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLongAnnotationValue(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getLookupTables(SecurityContext) - Method in class omero.gateway.facility.BrowseFacility
-
Get the available lookup tables
- getLotNumber() - Method in class omero.gateway.model.DetectorData
-
Returns the lot number of the detector.
- getLotNumber() - Method in class omero.gateway.model.DichroicData
-
Returns the lot number.
- getLotNumber() - Method in class omero.gateway.model.FilterData
-
Returns the lot number.
- getLotNumber() - Method in class omero.gateway.model.FilterSetData
-
Returns the lot number.
- getLotNumber() - Method in class omero.gateway.model.LightSourceData
-
Returns the lot of number the light source.
- getLotNumber() - Method in class omero.gateway.model.ObjectiveData
-
Returns the lot number of the detector.
- getManagerList(boolean) - Method in class ome.services.blitz.fire.Ring
-
- getManagerList(boolean) - Method in interface ome.services.blitz.redirect.Redirector.Context
-
Return all known managers in the current cluster context, possibly
filtering out the inactive ones.
- getManufacturer() - Method in class omero.gateway.model.DetectorData
-
Returns the manufacturer of the detector.
- getManufacturer() - Method in class omero.gateway.model.DichroicData
-
Returns the manufacturer.
- getManufacturer() - Method in class omero.gateway.model.FilterData
-
Returns the manufacturer.
- getManufacturer() - Method in class omero.gateway.model.FilterSetData
-
Returns the manufacturer.
- getManufacturer() - Method in class omero.gateway.model.LightSourceData
-
Returns the manufacturer of the light source.
- getManufacturer() - Method in class omero.gateway.model.ObjectiveData
-
Returns the manufacturer of the detector.
- getMarkerEnd() - Method in class omero.gateway.model.ShapeSettingsData
-
Returns the marker end.
- getMarkerStart() - Method in class omero.gateway.model.ShapeSettingsData
-
Returns the marker start.
- getMask(int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getMask() - Method in class omero.gateway.model.MaskData
-
Returns the mask as a byte array.
- getMaskAnnotationRef(int, int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getMaskAsBinaryArray() - Method in class omero.gateway.model.MaskData
-
Returns the mask image.
- getMaskAsBufferedImage() - Method in class omero.gateway.model.MaskData
-
Returns the mask image.
- getMaskFillColor(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getMaskFillRule(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getMaskFontFamily(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getMaskFontSize(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getMaskFontStyle(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getMaskID(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getMaskLocked(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getMaskPoints() - Method in class omero.gateway.model.PolygonData
-
Returns the points in the polygon.
- getMaskStrokeColor(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getMaskStrokeDashArray(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getMaskStrokeWidth(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getMaskTheC(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getMaskTheT(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getMaskTheZ(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getMaskTransform(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getMaximumFieldCount() - Method in class omero.gateway.model.PlateAcquisitionData
-
Returns the maximum number of fields in any well.
- getMeasuredRois_async(AMD_IRoi_getMeasuredRois, long, long, RoiOptions, Current) - Method in class ome.services.blitz.impl.RoiI
-
- getMeasuredRoisMap_async(AMD_IRoi_getMeasuredRoisMap, long, List<Long>, RoiOptions, Current) - Method in class ome.services.blitz.impl.RoiI
-
- getMedium() - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns the medium of the objective.
- getMediumAsEnum() - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns the medium enumeration value.
- getMemberCount_async(AMD_IShare_getMemberCount, List<Long>, Current) - Method in class ome.services.blitz.impl.ShareI
-
- getMemberOfGroupIds_async(AMD_IAdmin_getMemberOfGroupIds, Experimenter, Current) - Method in class ome.services.blitz.impl.AdminI
-
- getMemberShares_async(AMD_IShare_getMemberShares, boolean, Current) - Method in class ome.services.blitz.impl.ShareI
-
- getMemberSharesFor_async(AMD_IShare_getMemberSharesFor, Experimenter, boolean, Current) - Method in class ome.services.blitz.impl.ShareI
-
- getMembersOnly() - Method in class omero.gateway.model.GroupData
-
Returns the list of experimenters that are not owners of the group.
- getMetadataOptions() - Method in class ome.formats.importer.OMEROWrapper
-
- getMetadataService(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getMetadataService(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the IMetadataPrx
service.
- getMethod(String) - Method in class ome.services.blitz.util.IceMethodInvoker
-
For testing the cached method.
- getMicrobeamManipulation(int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getMicrobeamManipulationLightSourceSettings(int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getMicroscopeLotNumber() - Method in class omero.gateway.model.InstrumentData
-
Returns the lot number of the microscope.
- getMicroscopeManufacturer() - Method in class omero.gateway.model.InstrumentData
-
Returns the model of the microscope.
- getMicroscopeModel() - Method in class omero.gateway.model.InstrumentData
-
Returns the model of the microscope.
- getMicroscopeSerialNumber() - Method in class omero.gateway.model.InstrumentData
-
Returns the serial number of the microscope.
- getMicroscopeType() - Method in class omero.gateway.model.InstrumentData
-
Returns the type of microscope.
- getMiddleName() - Method in class omero.gateway.model.ExperimenterData
-
Returns the middle name of the experimenter.
- getMimetype() - Method in class ome.services.blitz.repo.CheckedPath
-
Get the mimetype for a file.
- getMIMEType() - Method in class omero.gateway.util.TIFFFilter
-
Returns the MIME type.
- getMinimumDepth(Collection<File>) - Method in class ome.services.blitz.repo.path.ClientFilePathTransformer
-
Get the smallest path component depth that allows the given set of File
s
to be disambiguated.
- getMode() - Method in class omero.gateway.model.ChannelAcquisitionData
-
Returns the mode.
- getMode() - Method in class omero.gateway.model.ChannelData
-
Returns the mode.
- getModeAsEnum() - Method in class omero.gateway.model.ChannelData
-
Returns the acquisition enumeration value.
- getModel() - Method in class omero.gateway.model.DetectorData
-
Returns the manufacturer of the detector.
- getModel() - Method in class omero.gateway.model.DichroicData
-
Returns the model.
- getModel() - Method in class omero.gateway.model.FilterData
-
Returns the model.
- getModel() - Method in class omero.gateway.model.FilterSetData
-
Returns the model.
- getModel() - Method in class omero.gateway.model.ObjectiveData
-
Returns the model of the objective.
- getModel_async(AMD_RenderingEngine_getModel, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getModelProcessors() - Method in class ome.formats.OMEROMetadataStoreClient
-
Retrieves the current list of model processors the metadata store is
using.
- getModelType(String) - Static method in class omero.gateway.util.PojoMapper
-
- getModelType(Class<? extends DataObject>) - Static method in class omero.gateway.util.PojoMapper
-
Converts the specified POJO into the corresponding model class.
- getMostRecentAnnotationLinks_async(AMD_ITimeline_getMostRecentAnnotationLinks, List<String>, List<String>, List<String>, Parameters, Current) - Method in class ome.services.blitz.impl.TimelineI
-
- getMostRecentObjects_async(AMD_ITimeline_getMostRecentObjects, List<String>, Parameters, boolean, Current) - Method in class ome.services.blitz.impl.TimelineI
-
- getMostRecentShareCommentLinks_async(AMD_ITimeline_getMostRecentShareCommentLinks, Parameters, Current) - Method in class ome.services.blitz.impl.TimelineI
-
- getMyOpenAgentSessions_async(AMD_ISession_getMyOpenAgentSessions, String, Current) - Method in class ome.services.blitz.impl.SessionI
-
- getMyOpenClientSessions_async(AMD_ISession_getMyOpenClientSessions, Current) - Method in class ome.services.blitz.impl.SessionI
-
- getMyOpenSessions_async(AMD_ISession_getMyOpenSessions, Current) - Method in class ome.services.blitz.impl.SessionI
-
- getMyUserPhotos_async(AMD_IAdmin_getMyUserPhotos, Current) - Method in class ome.services.blitz.impl.AdminI
-
- getName() - Method in class ome.services.blitz.repo.CheckedPath
-
Get the last component of this path, the entity to which the path corresponds.
- getName() - Method in class ome.services.roi.PopulateRoiJob
-
- getName() - Method in class ome.services.scripts.ScriptFinder
-
Subclasses should override to return the name of the file under scripts/
which should be uploaded.
- getName() - Method in class omero.gateway.model.ChannelData
-
Returns the name of the channel.
- getName() - Method in class omero.gateway.model.DatasetData
-
Returns the name of the dataset.
- getName() - Method in class omero.gateway.model.FileData
-
Returns the name of the file.
- getName() - Method in class omero.gateway.model.FolderData
-
Get the name of the Folder
- getName() - Method in class omero.gateway.model.GroupData
-
Returns the name of the group.
- getName() - Method in class omero.gateway.model.ImageData
-
Returns the name of the image.
- getName() - Method in class omero.gateway.model.PlateAcquisitionData
-
Returns the name of the plate acquisition.
- getName() - Method in class omero.gateway.model.PlateData
-
Returns the name of the plate.
- getName() - Method in class omero.gateway.model.ProjectData
-
Returns the name of the project.
- getName() - Method in class omero.gateway.model.ScreenData
-
Returns the name of the screen.
- getName() - Method in class omero.gateway.model.TableDataColumn
-
Get the header
- getNameSpace() - Method in class omero.gateway.model.AnnotationData
-
Retrieves the nameSpace
of the underlying
Annotation
instance.
- getNDFilter() - Method in class omero.gateway.model.ChannelData
-
Returns the ND filter wavelength of the channel.
- getNodeUuid(Current) - Method in class ome.services.blitz.fire.Ring
-
- getNominalMagnification() - Method in class omero.gateway.model.ObjectiveData
-
Returns the objective's nominal magnification factor.
- getNoStatsInfo() - Method in class ome.formats.importer.ImportContainer
-
Retrieves whether or not we disabling StatsInfo
population.
- getNumberOfRows() - Method in class omero.gateway.model.TableData
-
- getNumOfDirectories() - Method in class ome.formats.importer.ImportConfig
-
- getNumOfDirectories() - Method in class ome.formats.importer.util.IniFileLoader
-
- getObject() - Method in class omero.gateway.model.SearchResult
-
Get the found object
- getObjectAdapter() - Method in class ome.services.blitz.repo.AbstractRepositoryI
-
- getObjectAdapter() - Method in class ome.services.blitz.repo.InternalRepositoryConfig
-
- getObjectId() - Method in class ome.formats.importer.targets.ModelImportTarget
-
- getObjectId() - Method in class omero.gateway.model.SearchResult
-
Get the Id of the found object
- getObjective(int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getObjective() - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns the objective used to capture the image.
- getObjective() - Method in class omero.gateway.model.OTFData
-
Returns the associated objective.
- getObjectives() - Method in class omero.gateway.model.InstrumentData
-
Returns the collection of objectives.
- getObjectiveSettings(int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getObjectiveSettingsId() - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns the id of the Objective settings
or -1
if not already linked to the image.
- getObjectType() - Method in class ome.formats.importer.targets.ModelImportTarget
-
- getOffset() - Method in class omero.gateway.model.DetectorData
-
Returns the offset of the detector.
- getOffset() - Method in class omero.gateway.model.TableData
-
Get the row offset (if this
TableData
represents only a subset of
the original table)
- getOffset() - Method in class omero.sys.ParametersI
-
Returns the value of the offset
parameter.
- getOmeroVersion() - Method in class ome.formats.importer.ImportConfig
-
- getOptimisticFailureCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getOrCreateParams(long, Current) - Method in class omero.grid.ParamsHelper
-
Get the script params for the file.
- getOriginalEnumerations_async(AMD_ITypes_getOriginalEnumerations, Current) - Method in class ome.services.blitz.impl.TypesI
-
- getOriginalFile() - Method in class ome.formats.importer.transfers.TransferState
-
Find original file as defined by the ID in the RawFileStorePrx
regardless of group.
- getOriginalFile(long, Current) - Method in interface ome.services.blitz.repo.RepositoryDao
-
Gets the original file instance for a given file ID.
- getOriginalFile(long, Current) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
- getOriginalFileId() - Method in class omero.gateway.model.TableData
-
Get the original file id
- getOriginalFiles(String, CheckedPath, Current) - Method in interface ome.services.blitz.repo.RepositoryDao
-
Return a non-null, possibly empty list of OriginalFile
elements
which are accessible to the given user at the given path.
- getOriginalFiles(String, CheckedPath, Current) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
- getOriginalFiles(ServiceFactory, SqlAction, String, CheckedPath) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
- getOriginalFileWithHasher(long, Current) - Method in interface ome.services.blitz.repo.RepositoryDao
-
Retrieve the original file of the given ID.
- getOriginalFileWithHasher(long, Current) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
- getOriginalMimetype() - Method in class omero.gateway.model.FileAnnotationData
-
Returns the format of the original file.
- getOrphan() - Method in class omero.sys.ParametersI
-
- getOrphanedImages(SecurityContext, long) - Method in class omero.gateway.facility.BrowseFacility
-
Get orphaned images for a certain user
- getOSArch() - Method in class ome.formats.importer.util.ErrorContainer
-
- getOSName() - Method in class ome.formats.importer.util.ErrorContainer
-
- getOSVersion() - Method in class ome.formats.importer.util.ErrorContainer
-
- getOTF() - Method in class omero.gateway.model.ChannelAcquisitionData
-
Returns the OTF used for that channel.
- getOTF() - Method in class omero.gateway.model.InstrumentData
-
Returns the collection of OTFs.
- getOutput(String) - Method in class omero.client
-
Retrieves an item from the "output" shared (session) memory.
- getOutput_async(AMD_ISession_getOutput, String, String, Current) - Method in class ome.services.blitz.impl.SessionI
-
- getOutputKeys() - Method in class omero.client
-
Returns a list of keys for all items in the "output" shared (session)
memory
- getOutputKeys_async(AMD_ISession_getOutputKeys, String, Current) - Method in class ome.services.blitz.impl.SessionI
-
- getOutputs_async(AMD_ISession_getOutputs, String, Current) - Method in class ome.services.blitz.impl.SessionI
-
- getOwner() - Method in class omero.gateway.model.DataObject
-
Returns the owner of the object.
- getOwner(Current) - Method in class omero.model.DetailsI
-
- getOwnShares_async(AMD_IShare_getOwnShares, boolean, Current) - Method in class ome.services.blitz.impl.ShareI
-
- getParams(Long, String, Current) - Method in class ome.services.blitz.util.ParamsCache
-
Lookup a cached JobParams
instance for the given key.
- getParams_async(AMD_IScript_getParams, long, Current) - Method in class ome.services.blitz.impl.ScriptI
-
Get the Parameters of the script.
- getParentFilePath() - Method in class omero.gateway.model.ImageData
-
Returns the path to the file hosting the image.
- getParentFolder() - Method in class omero.gateway.model.FolderData
-
Get the the parent folder
- getParentFromLink(IObject) - Static method in class omero.gateway.util.ModelMapper
-
Returns the child from the passed link.
- getPassword() - Method in class omero.gateway.UserCredentials
-
Returns the password.
- getPastConnections_async(AMD_IShare_getPastConnections, long, Current) - Method in class ome.services.blitz.impl.ShareI
-
- getPath() - Method in class omero.gateway.model.FileData
-
Returns the (relative) path of the file.
- getPath() - Method in class omero.gateway.model.OTFData
-
Returns the path.
- getPathFor(long) - Method in class ome.services.blitz.repo.path.MakeNextDirectory
-
Get the subdirectories to create for the given index,
the first directories to be created corresponding to index == 0
.
- getPathFrom(FsFile) - Method in class ome.services.blitz.repo.path.FsFile
-
Find the relative path of this path from a given parent.
- getPaths() - Method in class ome.formats.importer.ImportCandidates
-
- getPathSanitizer() - Method in class ome.services.blitz.repo.path.ServerFilePathTransformer
-
Get the string transformer that is used to make file-path components safe across platforms.
- getPathToFile() - Method in class omero.gateway.model.ImageData
-
Returns the path to the file.
- getPerm1(Current) - Method in class omero.model.PermissionsI
-
- getPermissions() - Method in class omero.gateway.model.DataObject
-
Returns the permission of the object.
- getPermissions(Current) - Method in class omero.model.DetailsI
-
- getPermissionsLevel() - Method in class omero.gateway.model.PermissionData
-
Returns the permissions level.
- getPinholeSize(UnitsLength) - Method in class omero.gateway.model.ChannelData
-
Returns the pin hole size of the channel.
- getPixels() - Method in class ome.formats.OMEROImportFixture
-
Deprecated.
Accessor for the created pixels.
- getPixels() - Method in class omero.util.RPSTileLoop
-
After saving the binary data, the update event of the
Pixels
instance will be updated and therefore
need to be reloaded.
- getPixels_async(AMD_RenderingEngine_getPixels, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getPixelsBinDataBigEndian(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPixelsDimensionOrder(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPixelsID(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPixelsId_async(AMD_RawPixelsStore_getPixelsId, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getPixelsId_async(AMD_RawPixelsStore_getPixelsId, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getPixelSizeX(UnitsLength) - Method in class omero.gateway.model.PixelsData
-
Returns the dimension of a pixel along the X-axis.
- getPixelSizeY(UnitsLength) - Method in class omero.gateway.model.PixelsData
-
Returns the dimension of a pixel along the Y-axis.
- getPixelSizeZ(UnitsLength) - Method in class omero.gateway.model.PixelsData
-
Returns the dimension of a pixel along the Z-axis
- getPixelsPath_async(AMD_RawPixelsStore_getPixelsPath, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getPixelsPath_async(AMD_RawPixelsStore_getPixelsPath, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getPixelsPhysicalSizeX(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPixelsPhysicalSizeY(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPixelsPhysicalSizeZ(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPixelsService(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getPixelsService(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the IPixelsPrx
service.
- getPixelsSizeC(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPixelsSizeT(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPixelsSizeX(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPixelsSizeY(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPixelsSizeZ(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPixelsStore(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the RawPixelsStorePrx
service.
- getPixelsTimeIncrement(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPixelsType(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPixelsType() - Method in class omero.gateway.model.OTFData
-
Returns the pixels type.
- getPixelsTypeLowerBound_async(AMD_RenderingEngine_getPixelsTypeLowerBound, int, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getPixelsTypeUpperBound_async(AMD_RenderingEngine_getPixelsTypeUpperBound, int, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getPixelType() - Method in class omero.gateway.model.PixelsData
-
Returns the pixels type.
- getPixelValue(int, int) - Method in class omero.gateway.rnd.Plane2D
-
Returns the pixels value at the point specified by the x-coordinate
and y-coordinate.
- getPixelValues() - Method in class omero.gateway.rnd.Plane2D
-
Returns the pixels values
- getPlane(PixelBuffer, int, int, int) - Method in class ome.services.roi.PixelData
-
Returns the PixelData
for plane given its z, c and t
as well as a PixelBuffer
- getPlane(SecurityContext, PixelsData, int, int, int) - Method in class omero.gateway.facility.RawDataFacility
-
Extracts a 2D plane from the pixels set.
- getPlane(int, int, int) - Method in class omero.gateway.rnd.DataSink
-
Extracts a 2D plane from the pixels set this object is working for.
- getPlane_async(AMD_RawPixelsStore_getPlane, int, int, int, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getPlane_async(AMD_RawPixelsStore_getPlane, int, int, int, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getPlaneCount(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPlaneCount() - Method in class omero.gateway.model.ROIData
-
- getPlaneDeltaT(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPlaneExposureTime(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPlaneOffset_async(AMD_RawPixelsStore_getPlaneOffset, int, int, int, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getPlaneOffset_async(AMD_RawPixelsStore_getPlaneOffset, int, int, int, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getPlanePositionX(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPlanePositionY(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPlanePositionZ(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPlaneRegion_async(AMD_RawPixelsStore_getPlaneRegion, int, int, int, int, int, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getPlaneRegion_async(AMD_RawPixelsStore_getPlaneRegion, int, int, int, int, int, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getPlaneSize_async(AMD_RawPixelsStore_getPlaneSize, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getPlaneSize_async(AMD_RawPixelsStore_getPlaneSize, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getPlaneTheC(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPlaneTheT(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPlaneTheZ(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPlate() - Method in class omero.gateway.model.WellData
-
Returns the plate containing this Well.
- getPlateAcquisitions() - Method in class omero.gateway.model.PlateData
-
Returns the plate acquisitions related to this plate.
- getPlates(SecurityContext) - Method in class omero.gateway.facility.BrowseFacility
-
Loads all plates
- getPlates(SecurityContext, Collection<Long>) - Method in class omero.gateway.facility.BrowseFacility
-
Loads the plates with the given ids
- getPlates(SecurityContext, long) - Method in class omero.gateway.facility.BrowseFacility
-
Loads the plates for a particular user
- getPlates(SecurityContext, long, Collection<Long>) - Method in class omero.gateway.facility.BrowseFacility
-
Loads the plates with the given ids which belong to a particular user
- getPlates() - Method in class omero.gateway.model.ScreenData
-
Returns the plates contained in this screen.
- getPlateType() - Method in class omero.gateway.model.PlateData
-
Returns the type of plate e.g.
- getPockelCell() - Method in class omero.gateway.model.ChannelData
-
Returns the Pockel cell settings.
- getPointAnnotationRef(int, int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPointFillColor(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPointFillRule(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPointFontFamily(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPointFontSize(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPointFontStyle(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPointID(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPointLocked(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPoints(long, Session) - Method in class ome.services.roi.GeomTool
-
- getPoints() - Method in class omero.gateway.model.PolygonData
-
Returns the points in the polygon.
- getPoints() - Method in class omero.gateway.model.PolylineData
-
Returns the points in the Polyline.
- getPoints_async(AMD_IRoi_getPoints, long, Current) - Method in class ome.services.blitz.impl.RoiI
-
- getPointStrokeColor(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPointStrokeDashArray(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPointStrokeWidth(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPointText(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPointTheC(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPointTheT(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPointTheZ(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPointTransform(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPointX(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPointY(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPojosService(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the IContainerPrx
service.
- getPojoType(Class<? extends IObject>) - Static method in class omero.gateway.util.PojoMapper
-
- getPolygonAnnotationRef(int, int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolygonFillColor(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolygonFillRule(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolygonFontFamily(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolygonFontSize(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolygonFontStyle(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolygonID(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolygonLocked(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolygonPoints(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolygonStrokeColor(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolygonStrokeDashArray(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolygonStrokeWidth(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolygonText(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolygonTheC(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolygonTheT(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolygonTheZ(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolygonTransform(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylineAnnotationRef(int, int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylineFillColor(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylineFillRule(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylineFontFamily(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylineFontSize(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylineFontStyle(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylineID(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylineLocked(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylineMarkerEnd(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylineMarkerStart(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylinePoints(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylineStrokeColor(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylineStrokeDashArray(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylineStrokeWidth(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylineText(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylineTheC(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylineTheT(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylineTheZ(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPolylineTransform(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getPort() - Method in class omero.gateway.ServerInformation
-
Return the port
- getPositionX(UnitsLength) - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns the x-coordinate in the frame microscope.
- getPositionX(UnitsLength) - Method in class omero.gateway.model.WellSampleData
-
Returns the position X.
- getPositionY(UnitsLength) - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns the y-coordinate in the frame microscope.
- getPositionY(UnitsLength) - Method in class omero.gateway.model.WellSampleData
-
Returns the position Y.
- getPositionZ(UnitsLength) - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns the z-coordinate in the frame microscope.
- getPower(UnitsPower) - Method in class omero.gateway.model.LightSourceData
-
Returns the power of the light source.
- getPredicateFromClasses(Iterable<Class<? extends IObject>>) - Static method in class omero.cmd.graphs.GraphUtil
-
Construct a predicate to test if an object's class is of any of the given classes.
- getPrepareStatementCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getPrincipal() - Method in class omero.cmd.SessionI
-
- getProject(long) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getProjectionService(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getProjectionService(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the IProjectionPrx
service.
- getProjects() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getProjects(SecurityContext) - Method in class omero.gateway.facility.BrowseFacility
-
Get all projects
- getProjects(SecurityContext, Collection<Long>) - Method in class omero.gateway.facility.BrowseFacility
-
Get the projects for the given project ids
- getProjects(SecurityContext, long) - Method in class omero.gateway.facility.BrowseFacility
-
Get the projects of a certain user
- getProjects(SecurityContext, long, Collection<Long>) - Method in class omero.gateway.facility.BrowseFacility
-
Get the projects for the given project ids which belong to a certain user
- getProjects() - Method in class omero.gateway.model.DatasetData
-
Returns a set of projects containing the dataset.
- getProperties() - Method in class omero.client
-
Returns the active properties
for this instance.
- getProperty(String) - Method in class omero.client
-
Returns the property value for this key or the empty string if none.
- getPropertyChangeListeners() - Method in class omero.gateway.Gateway
-
Get the PropertyChangeListener
s
- getPropertyMap() - Method in class omero.client
-
Returns all properties which are prefixed with "omero." or "Ice."
- getPropertyMap(Properties) - Method in class omero.client
-
Returns all properties which are prefixed with "omero." or "Ice."
- getProtocolDescription() - Method in class omero.gateway.model.ScreenData
-
Returns the description of the protocol.
- getProtocolIdentifier() - Method in class omero.gateway.model.ScreenData
-
Returns the identifier of the protocol.
- getProxy() - Method in class ome.services.blitz.impl.ScriptProcessI
-
- getProxy(Current) - Method in class ome.services.blitz.repo.AbstractRepositoryI
-
- getProxy() - Method in class ome.services.blitz.repo.ManagedImportProcessI
-
- getProxy() - Method in interface ome.services.blitz.repo.ProcessContainer.Process
-
- getProxy() - Method in class ome.services.blitz.util.RegisterServantMessage
-
- getProxyOrNull(String, SessionControlPrx, Current) - Method in class ome.services.blitz.fire.Ring
-
- getProxyOrNull(Redirector.Context, String, SessionControlPrx, Current) - Method in class ome.services.blitz.redirect.AbstractRedirector
-
Returns null early if the
Current
has already once been
routed by a
Redirector
implementation, returns an existing
session if it can be found, or returns a null.
- getProxyOrNull(Redirector.Context, String, SessionControlPrx, Current) - Method in class ome.services.blitz.redirect.ConfigRedirector
-
Create or retrieve and returns a SessionPrx
which the current
method takes control of.
- getProxyOrNull(Redirector.Context, String, SessionControlPrx, Current) - Method in class ome.services.blitz.redirect.NullRedirector
-
Always returns null
- getProxyOrNull(Redirector.Context, String, SessionControlPrx, Current) - Method in interface ome.services.blitz.redirect.Redirector
-
Create or retrieve and returns a SessionPrx
which the current
method takes control of.
- getProxyOrNull(Redirector.Context, String, SessionControlPrx, Current) - Method in class ome.services.blitz.redirect.ScaleRedirector
-
- getQuantizedLinePoints(Line2D, Set<Point2D>) - Static method in class omero.model.SmartShape.Util
-
- getQuantumDef_async(AMD_RenderingEngine_getQuantumDef, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getQueries() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
Get all executed query strings
- getQuery() - Method in class omero.gateway.model.SearchParameters
-
Returns the query terms to search for
- getQueryCacheHitCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getQueryCacheMissCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getQueryCachePutCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getQueryExecutionCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getQueryExecutionMaxTime() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getQueryExecutionMaxTimeQueryString() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getQueryService(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getQueryService(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the IQueryPrx
service.
- getQueryStatistics(String) - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
Query statistics from query string (HQL or SQL)
- getRadiusX() - Method in class omero.gateway.model.EllipseData
-
Returns the radius along the X-axis.
- getRadiusY() - Method in class omero.gateway.model.EllipseData
-
Returns the radius along the Y-axis.
- getRating() - Method in class omero.gateway.model.RatingAnnotationData
-
Returns the rating value.
- getRawFileService(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the RawFileStorePrx
service.
- getRawFileStore(long, CheckedPath, String, Current) - Method in interface ome.services.blitz.repo.RepositoryDao
-
Create a
RawFileBean
(i.e. an implementation of
RawFileStore
which can be passed to
RepoRawFileStoreI
for performing internal functions.
- getRawFileStore(long, CheckedPath, String, Current) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
- getRawValue(int) - Method in class omero.gateway.rnd.Plane2D
-
Returns the raw data value at the given offset
- getReader() - Method in class ome.formats.importer.ImportContainer
-
Return the reader class name used for reading the contents of this
import container.
- getReader() - Method in interface ome.formats.model.IObjectContainerStore
-
Returns the current Bio-Formats reader that has been used to populate
the container store.
- getReader() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getReaderClass(Fileset, Current) - Method in class ome.services.blitz.repo.ManagedRepositoryI
-
Get the suggested BioFormats Reader for the given Fileset.
- getReaderType(String) - Method in class ome.formats.importer.ImportCandidates
-
Retrieve reader type for file specified in path
- getReagentsCounts() - Method in class omero.gateway.model.WellData
-
Returns the number of reagents linked to the object, key: id of the user,
value: number of annotation.
- getReagentSetDescripion() - Method in class omero.gateway.model.ScreenData
-
Returns the description of the reagent set.
- getReagentSetIdentifier() - Method in class omero.gateway.model.ScreenData
-
Returns the identifier of the Reagent set.
- getRectangleAnnotationRef(int, int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleFillColor(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleFillRule(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleFontFamily(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleFontSize(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleFontStyle(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleHeight(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleID(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleLocked(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleStrokeColor(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleStrokeDashArray(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleStrokeWidth(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleText(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleTheC(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleTheT(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleTheZ(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleTransform(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleWidth(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleX(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRectangleY(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRed() - Method in class omero.gateway.model.WellData
-
Returns the red component of the color associated to the well,
or -1
.
- getRedirect(Redirector.Context) - Method in class ome.services.blitz.redirect.AbstractRedirector
-
- getReference() - Method in class omero.gateway.model.ImageData
-
Returns the reference to the file to register.
- getReferenceCache() - Method in interface ome.formats.model.IObjectContainerStore
-
Returns the current reference cache.
- getReferenceCache() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getReferenceCount_async(AMD_ISession_getReferenceCount, String, Current) - Method in class ome.services.blitz.impl.SessionI
-
- getReferenceStringCache() - Method in interface ome.formats.model.IObjectContainerStore
-
Returns the current string based reference cache.
- getReferenceStringCache() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getRefPlateId() - Method in class omero.gateway.model.PlateAcquisitionData
-
Returns the id of the plate of reference.
- getRefractiveIndex() - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns the refractive index of the objective.
- getRegion_async(AMD_RawPixelsStore_getRegion, int, long, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getRegion_async(AMD_RawPixelsStore_getRegion, int, long, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getRegistry() - Method in class ome.services.blitz.repo.InternalRepositoryConfig
-
- getRegistry() - Method in class ome.services.blitz.util.BlitzConfiguration
-
- getRelativePath() - Method in class ome.services.blitz.repo.CheckedPath
-
Get the parent path of the entity to which this path corresponds.
- getRenderingDefId_async(AMD_RenderingEngine_getRenderingDefId, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getRenderingDefId_async(AMD_ThumbnailStore_getRenderingDefId, Current) - Method in class ome.services.blitz.impl.ThumbnailStoreI
-
- getRenderingEngines() - Method in class omero.gateway.Gateway
-
Returns the rendering engines to re-activate.
- getRenderingService(SecurityContext, long) - Method in class omero.gateway.Gateway
-
Returns the Rendering service
.
- getRenderingSettings_async(AMD_IRenderingSettings_getRenderingSettings, long, Current) - Method in class ome.services.blitz.impl.RenderingSettingsI
-
- getRenderingSettingsService(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getRenderingSettingsService(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the IRenderingSettingsPrx
service.
- getRepositoryInfoService(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getRepositoryService(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the IRepositoryInfoPrx
service.
- getRepositorySpace() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getRepoUuid() - Method in class ome.services.blitz.repo.AbstractRepositoryI
-
- getRepoUuid() - Method in class ome.services.blitz.repo.PublicRepositoryI
-
- getRequest(Class<R>) - Method in class omero.cmd.graphs.GraphRequestFactory
-
Construct a request.
- getRequest(Current) - Method in class omero.cmd.HandleI
-
- getRequiredPermissions() - Method in class omero.cmd.graphs.NullGraphTraversalProcessor
-
- getResolutionDescriptions_async(AMD_PyramidService_getResolutionDescriptions, Current) - Method in class ome.services.blitz.impl.AbstractPyramidServant
-
- getResolutionDescriptions_async(AMD_PyramidService_getResolutionDescriptions, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getResolutionLevel_async(AMD_PyramidService_getResolutionLevel, Current) - Method in class ome.services.blitz.impl.AbstractPyramidServant
-
- getResolutionLevel_async(AMD_PyramidService_getResolutionLevel, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getResolutionLevels_async(AMD_PyramidService_getResolutionLevels, Current) - Method in class ome.services.blitz.impl.AbstractPyramidServant
-
- getResolutionLevels_async(AMD_PyramidService_getResolutionLevels, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getResponse() - Method in class ome.services.blitz.impl.commands.SaveI
-
- getResponse() - Method in class ome.services.blitz.repo.ManagedImportRequestI
-
- getResponse() - Method in class ome.services.blitz.repo.RawAccessRequestI
-
- getResponse() - Method in class omero.cmd.admin.CurrentSessionsRequestI
-
- getResponse() - Method in class omero.cmd.admin.ResetPasswordRequestI
-
- getResponse() - Method in class omero.cmd.admin.UpdateSessionTimeoutRequestI
-
- getResponse() - Method in class omero.cmd.basic.DoAllI
-
- getResponse() - Method in class omero.cmd.basic.ListRequestsI
-
- getResponse() - Method in class omero.cmd.basic.TimingI
-
- getResponse() - Method in class omero.cmd.CmdCallbackI
-
Returns possibly null Response value.
- getResponse() - Method in class omero.cmd.fs.FindPyramidsI
-
- getResponse() - Method in class omero.cmd.fs.ManageImageBinariesI
-
- getResponse() - Method in class omero.cmd.fs.OriginalMetadataRequestI
-
- getResponse() - Method in class omero.cmd.fs.UsedFilesRequestI
-
- getResponse() - Method in class omero.cmd.graphs.Chgrp2I
-
- getResponse() - Method in class omero.cmd.graphs.Chmod2I
-
- getResponse() - Method in class omero.cmd.graphs.Chown2I
-
- getResponse() - Method in class omero.cmd.graphs.Delete2I
-
- getResponse() - Method in class omero.cmd.graphs.DiskUsage2I
-
- getResponse() - Method in class omero.cmd.graphs.DiskUsageI
-
Deprecated.
- getResponse() - Method in class omero.cmd.graphs.DuplicateI
-
- getResponse() - Method in class omero.cmd.graphs.FindChildrenI
-
- getResponse() - Method in class omero.cmd.graphs.FindParentsI
-
- getResponse() - Method in class omero.cmd.graphs.LegalGraphTargetsI
-
- getResponse() - Method in class omero.cmd.graphs.SkipHeadI
-
- getResponse(Current) - Method in class omero.cmd.HandleI
-
- getResponse() - Method in class omero.cmd.Helper
-
- getResponse() - Method in interface omero.cmd.IRequest
-
Returns the current response value.
- getResponse() - Method in class omero.cmd.mail.SendEmailRequestI
-
- getResponses() - Method in class ome.services.blitz.impl.ProcessorCallbackI
-
Return the number of times this instance has been called in a thread
safe manner.
- getResult() - Method in class omero.gateway.model.ROIResult
-
Returns the result.
- getResults(int, Current) - Method in class ome.services.blitz.impl.ScriptProcessI
-
- getResults(int, Class<? extends DataObject>) - Method in class omero.gateway.model.SearchResultCollection
-
Get all results of a certain scope and/or type
- getResults(ProcessPrx, Current) - Method in class omero.grid.InteractiveProcessorI
-
- getRGBA(Color) - Static method in class omero.gateway.model.ShapeSettingsData
-
Returns the Color's RGBA value as integer
- getRGBA_async(AMD_RenderingEngine_getRGBA, int, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- getRing() - Method in class ome.services.blitz.util.BlitzConfiguration
-
- getROI() - Method in class omero.gateway.util.ROIComponent
-
Returns all the ROI in the component as a list.
- getROI() - Method in class omero.gateway.util.UploadMask
-
Returns the ROIs created from uploading the images.
- getROIAnnotationRef(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getROIAnnotationRefCount(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getROICoordinate() - Method in class omero.gateway.model.ShapeData
-
Returns the ROICoordinate for the ShapeData.
- getROICount() - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getROICount(SecurityContext, long) - Method in class omero.gateway.facility.ROIFacility
-
Get the number of ROIs for an image (-1
in case of error)
- getROIDescription(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getROIFolders(SecurityContext, long) - Method in class omero.gateway.facility.ROIFacility
-
Get all ROI folders for a certain image
- getROIID(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRoiIds() - Method in class ome.services.blitz.measurements.MeasurementStore
-
- getRoiIds() - Method in interface ome.services.blitz.measurements.OmeroMeasurementStore
-
Returns the ids of all Roi instances created during the save method.
- getRoiMeasurements_async(AMD_IRoi_getRoiMeasurements, long, RoiOptions, Current) - Method in class ome.services.blitz.impl.RoiI
-
- getROIName(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getROIs() - Method in class omero.gateway.model.ROIResult
-
Returns the collection of ROIs.
- getRoiService(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getROIService(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the IRoiPrx
service.
- getRoiStats_async(AMD_IRoi_getRoiStats, long, Current) - Method in class ome.services.blitz.impl.RoiI
-
- getRoot() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getRoot() - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getRootFile() - Method in class ome.formats.importer.transfers.TransferState
-
Find original file represented by the managed repository that
import is taking place to.
- getRouter(Communicator) - Static method in class omero.client
-
Acquires the default router
,
and throws an exception if it is not of type {Glacier2.RouterPrx}.
- getRow() - Method in class omero.gateway.model.WellData
-
Returns the row used to indicate the location of the well on the grid.
- getRow_async(AMD_RawPixelsStore_getRow, int, int, int, int, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getRow_async(AMD_RawPixelsStore_getRow, int, int, int, int, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getRowOffset_async(AMD_RawPixelsStore_getRowOffset, int, int, int, int, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getRowOffset_async(AMD_RawPixelsStore_getRowOffset, int, int, int, int, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getRowSequenceIndex() - Method in class omero.gateway.model.PlateData
-
Returns the index indicating how to label a row.
- getRowSize_async(AMD_RawPixelsStore_getRowSize, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getRowSize_async(AMD_RawPixelsStore_getRowSize, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getScope() - Method in class omero.gateway.model.SearchParameters
-
Returns the scope of the search.
- getScopeId() - Method in class omero.gateway.model.SearchResult
-
The Id of the search scope, e.g. name, description, ...
- getScreens() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getScreens(SecurityContext) - Method in class omero.gateway.facility.BrowseFacility
-
Loads all screens
- getScreens(SecurityContext, Collection<Long>) - Method in class omero.gateway.facility.BrowseFacility
-
Loads the screens with the given ids
- getScreens(SecurityContext, long) - Method in class omero.gateway.facility.BrowseFacility
-
Loads the screens for a particular user
- getScreens(SecurityContext, long, Collection<Long>) - Method in class omero.gateway.facility.BrowseFacility
-
Loads the screens with the given ids which belong to a particular user
- getScreens() - Method in class omero.gateway.model.PlateData
-
Returns a set of screens containing the plate.
- getScriptID_async(AMD_IScript_getScriptID, String, Current) - Method in class ome.services.blitz.impl.ScriptI
-
Get the id of the official script with given path.
- getScriptRepository(Current) - Method in class ome.services.blitz.impl.SharedResourcesI
-
- getScripts_async(AMD_IScript_getScripts, Current) - Method in class ome.services.blitz.impl.ScriptI
-
Get Scripts will return all the scripts by id and name available on the
server.
- getScriptsByMimetype_async(AMD_IScript_getScriptsByMimetype, String, Current) - Method in class ome.services.blitz.impl.ScriptI
-
Get Scripts will return all the scripts by id and name available on the
server.
- getScriptService(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getScriptService(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the IScriptPrx
service.
- getScriptText_async(AMD_IScript_getScriptText, long, Current) - Method in class ome.services.blitz.impl.ScriptI
-
Return the script with the name to the user.
- getScriptWithDetails_async(AMD_IScript_getScriptWithDetails, long, Current) - Method in class ome.services.blitz.impl.ScriptI
-
Return the script with the name to the user.
- getSearchService(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the SearchPrx
service.
- getSecondLevelCacheHitCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getSecondLevelCacheMissCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getSecondLevelCachePutCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getSecondLevelCacheRegionNames() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
Get all second-level cache region names
- getSecondLevelCacheStatistics(String) - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
Second level cache statistics per region
- getSecurityContexts(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getSecurityRoles_async(AMD_IAdmin_getSecurityRoles, Current) - Method in class ome.services.blitz.impl.AdminI
-
- getSelectedFile() - Method in class ome.formats.importer.util.ErrorContainer
-
- getSerialNumber() - Method in class omero.gateway.model.DetectorData
-
Returns the serial number of the detector.
- getSerialNumber() - Method in class omero.gateway.model.DichroicData
-
Returns the serial number.
- getSerialNumber() - Method in class omero.gateway.model.FilterData
-
Returns the serial number.
- getSerialNumber() - Method in class omero.gateway.model.FilterSetData
-
Returns the serial number.
- getSerialNumber() - Method in class omero.gateway.model.LightSourceData
-
Returns the serial number of the light source.
- getSerialNumber() - Method in class omero.gateway.model.ObjectiveData
-
Returns the serial number of the objective.
- getSeries() - Method in class omero.gateway.model.ImageData
-
Returns the series.
- getServant(Identity) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getServant() - Method in class ome.services.blitz.util.RegisterServantMessage
-
- getServantList() - Method in class omero.util.ServantHolder
-
- getServer() - Method in class omero.gateway.LoginCredentials
-
Returns the server information.
- getServerFileFromFsFile(FsFile) - Method in class ome.services.blitz.repo.path.ServerFilePathTransformer
-
Given a repository path, returns the corresponding server-local File
.
- getServerFileMimetype() - Method in class omero.gateway.model.FileAnnotationData
-
Returns the file format as defined by the specification, corresponding to
the file extension.
- getServerInformation() - Method in class omero.gateway.SecurityContext
-
- getServerPort() - Method in class ome.formats.importer.util.IniFileLoader
-
- getServerTime_async(AMD_IConfig_getServerTime, Current) - Method in class ome.services.blitz.impl.ConfigI
-
- getServerVersion() - Method in class omero.gateway.Gateway
-
Get the version of the server the Gateway is connected to
- getServiceFactory() - Method in class ome.formats.OMEROMetadataStoreClient
-
Returns the currently active service factory.
- getServiceFactory(String, String) - Method in class ome.services.blitz.fire.SessionManagerI
-
- getServiceFactory(Identity) - Method in class ome.services.blitz.fire.SessionManagerI
-
- getServiceFactory() - Method in class ome.services.blitz.impl.RawFileStoreI
-
- getServiceFactory() - Method in class ome.services.blitz.util.FindServiceFactoryMessage
-
- getServiceFactory() - Method in class omero.cmd.Helper
-
- getServiceFactoryIdentity(Current) - Method in class ome.services.blitz.fire.SessionManagerI
-
- getServiceKey() - Method in class ome.services.blitz.util.ExpiredServantMessage
-
- getSession() - Method in class omero.client
-
- getSession() - Method in class omero.cmd.Helper
-
- getSession() - Method in class omero.model.DetailsI
-
- getSession() - Method in class omero.util.RPSTileLoop
-
- getSession() - Method in class omero.util.ServantHolder
-
- getSession_async(AMD_ISession_getSession, String, Current) - Method in class ome.services.blitz.impl.SessionI
-
- getSessionCloseCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getSessionId() - Method in class omero.client
-
Returns the UUID for the current session without making a remote call.
- getSessionId(ExperimenterData) - Method in class omero.gateway.Gateway
-
Get the ID of the current session
- getSessionOpenCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getSessionService(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getSetting_async(AMD_ILdap_getSetting, Current) - Method in class ome.services.blitz.impl.LdapI
-
- getShapeAnnotationRefCount(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getShapeCount(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getShapeCount() - Method in class omero.gateway.model.ROIData
-
Returns the number of shapes in the ROI.
- getShapes(int, int) - Method in class omero.gateway.model.ROIData
-
Returns the list of shapes on a given plane.
- getShapeSettings() - Method in class omero.gateway.model.ShapeData
-
Returns the settings associated to the shape.
- getShapesInRange(ROICoordinate, ROICoordinate) - Method in class omero.gateway.model.ROIData
-
- getShapeStats_async(AMD_IRoi_getShapeStats, long, Current) - Method in class ome.services.blitz.impl.RoiI
-
- getShapeStatsList_async(AMD_IRoi_getShapeStatsList, List<Long>, Current) - Method in class ome.services.blitz.impl.RoiI
-
- getShapeStatsRestricted_async(AMD_IRoi_getShapeStatsRestricted, List<Long>, int, int, int[], Current) - Method in class ome.services.blitz.impl.RoiI
-
- getShapeType(int, int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getShare_async(AMD_IShare_getShare, long, Current) - Method in class ome.services.blitz.impl.ShareI
-
- getSharedResources(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the SharedResourcesPrx
service.
- getShareService(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getSharesOwnedBy_async(AMD_IShare_getSharesOwnedBy, Experimenter, boolean, Current) - Method in class ome.services.blitz.impl.ShareI
-
- getSizeC() - Method in class omero.gateway.model.PixelsData
-
Returns the number of channels.
- getSizeT() - Method in class omero.gateway.model.PixelsData
-
Returns the number of time-points.
- getSizeX() - Method in class omero.gateway.model.OTFData
-
Returns the size along the X-axis.
- getSizeX() - Method in class omero.gateway.model.PixelsData
-
Returns the number of pixels along the X-axis.
- getSizeY() - Method in class omero.gateway.model.OTFData
-
Returns the size along the Y-axis.
- getSizeY() - Method in class omero.gateway.model.PixelsData
-
Returns the number of pixels along the Y-axis.
- getSizeZ() - Method in class omero.gateway.model.PixelsData
-
Returns the number of pixels along the Z-axis.
- getSkipHeadPolicyPerform(GraphPolicy, SetMultimap<String, Long>) - Static method in class omero.cmd.graphs.SkipHeadPolicy
-
Adjust an existing graph traversal policy so that for specific model objects permissions are not checked.
- getSkipHeadPolicySkip(GraphPolicy, GraphPathBean, Collection<String>, GraphPolicy.Action, SetMultimap<String, Long>) - Static method in class omero.cmd.graphs.SkipHeadPolicy
-
Adjust an existing graph traversal policy so that orphaned model objects will always or never be included,
according to their type.
- getSkipTailPolicy(GraphPolicy, Predicate<Class<? extends IObject>>) - Static method in class omero.cmd.graphs.SkipTailPolicy
-
Adjust an existing graph traversal policy so that processing stops at certain model object classes.
- getSourceObject(LSID) - Method in interface ome.formats.model.IObjectContainerStore
-
Retrieves an OMERO Blitz source object for a given LSID.
- getSourceObject(LSID) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getSourceObjects(Class<T>) - Method in interface ome.formats.model.IObjectContainerStore
-
Retrieves all OMERO Blitz source objects of a given class.
- getSourceObjects(Class<T>) - Method in class ome.formats.OMEROMetadataStoreClient
-
- getSql() - Method in class omero.cmd.Helper
-
- getStack_async(AMD_RawPixelsStore_getStack, int, int, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getStack_async(AMD_RawPixelsStore_getStack, int, int, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getStackOffset_async(AMD_RawPixelsStore_getStackOffset, int, int, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getStackOffset_async(AMD_RawPixelsStore_getStackOffset, int, int, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getStackSize_async(AMD_RawPixelsStore_getStackSize, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getStackSize_async(AMD_RawPixelsStore_getStackSize, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getStackTrace(Throwable) - Static method in class ome.formats.importer.util.ErrorHandler
-
Return the stack trace from a Throwable
.
- getStageLabelId() - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns the id of the StageLabel
or -1
if not already linked to the image.
- getStart() - Method in class omero.gateway.model.SearchParameters
-
Returns the lower bound of the time interval.
- getStartFrom(Response) - Method in class omero.cmd.graphs.Chgrp2I
-
- getStartFrom(Response) - Method in class omero.cmd.graphs.Chmod2I
-
- getStartFrom(Response) - Method in class omero.cmd.graphs.Chown2I
-
- getStartFrom(Response) - Method in class omero.cmd.graphs.Delete2I
-
- getStartFrom(Response) - Method in class omero.cmd.graphs.DuplicateI
-
- getStartFrom(Response) - Method in interface omero.cmd.graphs.WrappableRequest
-
From the response of the head-skipping request, determine which model objects are the targets of the operation.
- getStartTime() - Method in class omero.gateway.model.PlateAcquisitionData
-
Returns the time when the first image was collected.
- getStartTime() - Method in class omero.gateway.model.WellSampleData
-
Returns the time at which the field was acquired.
- getStartTime() - Method in class omero.sys.ParametersI
-
Returns the value of the start time
parameter.
- getStartTime() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getStatefulServiceCount() - Method in class ome.services.blitz.impl.ServiceFactoryI
-
NB: Much of the logic here is similar to
SessionI.doClose
and should be
pushed down.
- getStatefulServiceCount() - Method in class omero.util.ServantHolder
-
- getStatefulServices() - Method in class omero.client
-
Returns all active StatefulServiceInterface
proxies.
- getStaticDisableHistory() - Method in class ome.formats.importer.ImportConfig
-
- getStaticDisableHistory() - Method in class ome.formats.importer.util.IniFileLoader
-
- getStats(List<Long>) - Method in class ome.services.roi.GeomTool
-
- getStatsRestricted(List<Long>, int, int, int[]) - Method in class ome.services.roi.GeomTool
-
- getStatus() - Method in class ome.formats.importer.util.ErrorContainer
-
return the error status
- getStatus() - Method in class omero.cmd.CmdCallbackI
-
Returns possibly null Status value.
- getStatus(Current) - Method in class omero.cmd.HandleI
-
- getStatus() - Method in class omero.cmd.Helper
-
- getStatus() - Method in class omero.gateway.model.PlateData
-
Returns the status of the plate.
- getStatus() - Method in class omero.gateway.model.WellData
-
Returns the status of the well.
- getStatusOrThrow() - Method in class omero.cmd.CmdCallbackI
-
- getStepProvidingCompleteResponse() - Method in class omero.cmd.graphs.Chgrp2I
-
- getStepProvidingCompleteResponse() - Method in class omero.cmd.graphs.Chmod2I
-
- getStepProvidingCompleteResponse() - Method in class omero.cmd.graphs.Chown2I
-
- getStepProvidingCompleteResponse() - Method in class omero.cmd.graphs.Delete2I
-
- getStepProvidingCompleteResponse() - Method in class omero.cmd.graphs.DuplicateI
-
- getStepProvidingCompleteResponse() - Method in interface omero.cmd.graphs.WrappableRequest
-
Get the step of this request that suffices for assembling the request's response.
- getSteps() - Method in class omero.cmd.Helper
-
- getStringRepresentation() - Method in enum omero.gateway.model.SearchScope
-
Get a String representation of this scope which can be used in a
lucene search
- getStringRepresentation(Collection<SearchScope>) - Static method in enum omero.gateway.model.SearchScope
-
Get a String representation of the given scopes which can be used in a
lucence search
- getStringSeparator(String) - Static method in class omero.gateway.util.Utils
-
Returns the separator or null
.
- getStroke() - Method in class omero.gateway.model.ShapeSettingsData
-
Returns the color of the stroke.
- getStrokeDashArray() - Method in class omero.gateway.model.ShapeSettingsData
-
Returns the stroke dashes.
- getStrokeWidth(UnitsLength) - Method in class omero.gateway.model.ShapeSettingsData
-
Returns the stroke's width (or 1 px if it's not set or <= 0)
- getSuccessfulTransactionCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getSupportedMetadataLevels() - Method in class ome.formats.importer.OMEROWrapper
-
- getSymbol(Current) - Method in class omero.model.ElectricPotentialI
-
- getSymbol(Current) - Method in class omero.model.FrequencyI
-
- getSymbol(Current) - Method in class omero.model.LengthI
-
- getSymbol(Current) - Method in class omero.model.PowerI
-
- getSymbol(Current) - Method in class omero.model.PressureI
-
- getSymbol(Current) - Method in class omero.model.TemperatureI
-
- getSymbol(Current) - Method in class omero.model.TimeI
-
- getT() - Method in class omero.gateway.model.ShapeData
-
Returns the time-point. -1 if the shape applies to all time-points of
the image.
- getTable() - Method in class ome.services.blitz.measurements.MeasurementStore
-
- getTable() - Method in interface ome.services.blitz.measurements.OmeroMeasurementStore
-
Returns the Table proxy which is in use by this service.
- getTable(SecurityContext, long) - Method in class omero.gateway.facility.TablesFacility
-
- getTable(SecurityContext, long, long, long, int...) - Method in class omero.gateway.facility.TablesFacility
-
Load data from a table
- getTable(SecurityContext, long, List<Long>) - Method in class omero.gateway.facility.TablesFacility
-
Load data from a table
- getTable(SecurityContext, long, long...) - Method in class omero.gateway.facility.TablesFacility
-
Load data from a table
- getTable(SecurityContext, long, long, long, long...) - Method in class omero.gateway.facility.TablesFacility
-
Load data from a table
- getTable_async(AMD_IRoi_getTable, long, Current) - Method in class ome.services.blitz.impl.RoiI
-
- getTableID() - Method in class omero.gateway.model.TableResult
-
Returns the id of the table.
- getTableInfo(SecurityContext, long) - Method in class omero.gateway.facility.TablesFacility
-
Get basic information about a table.
- getTagAnnotationCount() - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getTagAnnotationDescription(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getTagAnnotationID(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getTagAnnotationNamespace(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getTagAnnotationValue(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getTagDescription() - Method in class omero.gateway.model.TagAnnotationData
-
Returns the description of the tag.
- getTagDescriptions() - Method in class omero.gateway.model.TagAnnotationData
-
Returns the descriptions linked to that tag.
- getTaggedObjectsCount_async(AMD_IMetadata_getTaggedObjectsCount, List<Long>, Parameters, Current) - Method in class ome.services.blitz.impl.MetadataI
-
- getTags() - Method in class omero.gateway.model.TagAnnotationData
-
Returns the collection of tags related to this tag.
- getTagValue() - Method in class omero.gateway.model.TagAnnotationData
-
Returns the text of the tag.
- getTarget() - Method in class ome.formats.importer.ImportConfig
-
- getTarget() - Method in class ome.formats.importer.ImportContainer
-
- getTarget(Class<T>, long) - Method in class ome.formats.OMEROMetadataStoreClient
-
Helper method to retrieve an object from iQuery
- getTarget() - Method in class ome.services.blitz.repo.ManagedImportLocationI
-
Return the server-side
CheckedPath
instance which can be passed to
a Bio-Formats reader.
- getTargetMultimap(Set<Class<? extends IObject>>, Map<String, List<Long>>) - Method in class omero.cmd.graphs.GraphHelper
-
Converts the Ice StringLongListMap
to a multimap.
- getTargetSet(Set<Class<? extends IObject>>, Collection<String>) - Method in class omero.cmd.graphs.GraphHelper
-
Converts the Ice StringSet
to a set.
- getTempDir() - Method in class omero.util.TempFileManager
-
Returns the directory under which all temporary files and folders will be
created.
- gettempdir() - Static method in class omero.util.TempFileManager
-
- getTemperature(UnitsTemperature) - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns the temperature.
- getTemplate() - Method in class ome.formats.importer.targets.TemplateImportTarget
-
- getTerm() - Method in class omero.gateway.model.TermAnnotationData
-
Returns the term
.
- getTermAnnotationCount() - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getTermAnnotationDescription(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getTermAnnotationID(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getTermAnnotationNamespace(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getTermAnnotationValue(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getTermDescription() - Method in class omero.gateway.model.TermAnnotationData
-
Returns the description of the term.
- getText() - Method in class omero.gateway.model.EllipseData
-
Returns the text of the shape.
- getText() - Method in class omero.gateway.model.LineData
-
Returns the text of the shape.
- getText() - Method in class omero.gateway.model.MaskData
-
Returns the text of the shape.
- getText() - Method in class omero.gateway.model.PointData
-
Returns the text of the shape.
- getText() - Method in class omero.gateway.model.PolygonData
-
Returns the text of the shape.
- getText() - Method in class omero.gateway.model.PolylineData
-
Returns the text of the shape.
- getText() - Method in class omero.gateway.model.RectangleData
-
Returns the text of the shape.
- getText() - Method in class omero.gateway.model.TextData
-
Returns the text of the shape.
- getText() - Method in class omero.gateway.model.TextualAnnotationData
-
Returns the text of this annotation.
- getText() - Method in class omero.gateway.model.XMLAnnotationData
-
Returns the text of this annotation.
- getThumbnail_async(AMD_ThumbnailStore_getThumbnail, RInt, RInt, Current) - Method in class ome.services.blitz.impl.ThumbnailStoreI
-
- getThumbnailByLongestSide_async(AMD_ThumbnailStore_getThumbnailByLongestSide, RInt, Current) - Method in class ome.services.blitz.impl.ThumbnailStoreI
-
- getThumbnailByLongestSideDirect_async(AMD_ThumbnailStore_getThumbnailByLongestSideDirect, RInt, Current) - Method in class ome.services.blitz.impl.ThumbnailStoreI
-
- getThumbnailByLongestSideSet_async(AMD_ThumbnailStore_getThumbnailByLongestSideSet, RInt, List<Long>, Current) - Method in class ome.services.blitz.impl.ThumbnailStoreI
-
- getThumbnailDirect_async(AMD_ThumbnailStore_getThumbnailDirect, RInt, RInt, Current) - Method in class ome.services.blitz.impl.ThumbnailStoreI
-
- getThumbnailForSectionByLongestSideDirect_async(AMD_ThumbnailStore_getThumbnailForSectionByLongestSideDirect, int, int, RInt, Current) - Method in class ome.services.blitz.impl.ThumbnailStoreI
-
- getThumbnailForSectionDirect_async(AMD_ThumbnailStore_getThumbnailForSectionDirect, int, int, RInt, RInt, Current) - Method in class ome.services.blitz.impl.ThumbnailStoreI
-
- getThumbnailService(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the ThumbnailStorePrx
service.
- getThumbnailSet_async(AMD_ThumbnailStore_getThumbnailSet, RInt, RInt, List<Long>, Current) - Method in class ome.services.blitz.impl.ThumbnailStoreI
-
- getThumbnailWithoutDefault_async(AMD_ThumbnailStore_getThumbnailWithoutDefault, RInt, RInt, Current) - Method in class ome.services.blitz.impl.ThumbnailStoreI
-
- getTie(Identity) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getTile(SecurityContext, PixelsData, int, int, int, int, int, int, int) - Method in class omero.gateway.facility.RawDataFacility
-
Extracts a 2D tile from the pixels set
- getTile(int, int, int, int, int, int, int) - Method in class omero.gateway.rnd.DataSink
-
Extracts a 2D tile from the pixels set this object is working for.
- getTile(int, int, int, int, int, int, int) - Method in class omero.util.RPSTileData
-
- getTile(int, int, int, int, int, int, int) - Method in interface omero.util.TileData
-
- getTile_async(AMD_RawPixelsStore_getTile, int, int, int, int, int, int, int, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getTile_async(AMD_RawPixelsStore_getTile, int, int, int, int, int, int, int, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getTileSize(Long) - Method in class ome.formats.OMEROMetadataStoreClient
-
Retrieves the suggested tile size for a pixels set.
- getTileSize_async(AMD_PyramidService_getTileSize, Current) - Method in class ome.services.blitz.impl.AbstractPyramidServant
-
- getTileSize_async(AMD_PyramidService_getTileSize, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getTime() - Method in class omero.gateway.model.TimeAnnotationData
-
Returns the time value.
- getTimelineService(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getTimePoint() - Method in class omero.gateway.model.ROICoordinate
-
Returns the timepoint.
(-1 == all timepoints)
- getTimepoint_async(AMD_RawPixelsStore_getTimepoint, int, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getTimepoint_async(AMD_RawPixelsStore_getTimepoint, int, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getTimepointOffset_async(AMD_RawPixelsStore_getTimepointOffset, int, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getTimepointOffset_async(AMD_RawPixelsStore_getTimepointOffset, int, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getTimepointSize_async(AMD_RawPixelsStore_getTimepointSize, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getTimepointSize_async(AMD_RawPixelsStore_getTimepointSize, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getTimestampAnnotationCount() - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getTimestampAnnotationDescription(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getTimestampAnnotationID(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getTimestampAnnotationNamespace(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getTimestampAnnotationValue(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getToken() - Method in class ome.formats.importer.util.ErrorContainer
-
- getTokenUrl() - Method in class ome.formats.importer.ImportConfig
-
- getTooSimilarFiles(Set<File>) - Method in class ome.services.blitz.repo.path.ClientFilePathTransformer
-
Get the files that are too similarly named.
- getTopicManager() - Method in class ome.services.blitz.util.BlitzConfiguration
-
- getTopLevelNames(Iterable<Class<? extends IObject>>) - Method in class omero.cmd.graphs.GraphHelper
-
Get the simple names of the top-level superclasses of the given classes.
- getTotalSize_async(AMD_RawPixelsStore_getTotalSize, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- getTotalSize_async(AMD_RawPixelsStore_getTotalSize, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- getTransactionCount() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- getTransform() - Method in class omero.gateway.model.ShapeData
-
Returns the transformation.
- getTransmittance() - Method in class omero.gateway.model.FilterData
-
Returns the cut out tolerance value or -1
.
- getType() - Method in class omero.gateway.model.DetectorData
-
Returns the type of the detector.
- getType() - Method in class omero.gateway.model.FilterData
-
Returns the type.
- getType() - Method in class omero.gateway.model.LightSourceData
-
Returns the type of light.
- getType() - Method in class omero.gateway.model.SearchResult
-
Get the type (class) of objects to search for see
DataObject
- getType() - Method in class omero.gateway.model.TableDataColumn
-
Get the data type
- getTypes() - Method in class omero.gateway.model.SearchParameters
-
Returns the types to search on.
- getTypesService(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getTypesService(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the ITypesPrx
service.
- getUIBounds() - Method in class ome.formats.importer.ImportConfig
-
- getUIBounds() - Method in class ome.formats.importer.util.IniFileLoader
-
- getUnique() - Method in class omero.sys.ParametersI
-
- getUnit(Current) - Method in class omero.model.ElectricPotentialI
-
- getUnit(Current) - Method in class omero.model.FrequencyI
-
- getUnit(Current) - Method in class omero.model.LengthI
-
- getUnit(Current) - Method in class omero.model.PowerI
-
- getUnit(Current) - Method in class omero.model.PressureI
-
- getUnit(Current) - Method in class omero.model.TemperatureI
-
- getUnit(Current) - Method in class omero.model.TimeI
-
- getUntied(Identity) - Method in class omero.util.ServantHolder
-
- getUpdated() - Method in class omero.gateway.model.DataObject
-
Returns the updated time of the object.
- getUpdateEvent(Current) - Method in class omero.model.DetailsI
-
- getUpdateService(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- getUpdateService(SecurityContext) - Method in class omero.gateway.Gateway
-
Returns the IUpdatePrx
service.
- getUpdateService(SecurityContext, String) - Method in class omero.gateway.Gateway
-
Returns the IUpdatePrx
service.
- getUploader() - Method in class ome.formats.importer.transfers.TransferState
-
- getUploader(String) - Method in class ome.formats.importer.transfers.TransferState
-
Return the RawFileStorePrx
instance for this index setting
the mode if not null.
- getUploader(int, Current) - Method in class ome.services.blitz.repo.ManagedImportProcessI
-
- getUploaderUrl() - Method in class ome.formats.importer.ImportConfig
-
- getUploadOffset(int, Current) - Method in class ome.services.blitz.repo.ManagedImportProcessI
-
- getUploadTimeLeft() - Method in class ome.formats.importer.transfers.TransferState
-
- getUploadTimeLeft() - Method in class ome.formats.importer.util.ProportionalTimeEstimatorImpl
-
- getUploadTimeLeft() - Method in interface ome.formats.importer.util.TimeEstimator
-
Return the estimated time left in milliseconds based on the calls to
start
and
stop
methods.
- getUploadUrl() - Method in class ome.formats.importer.util.ErrorContainer
-
- getUsageFraction_async(AMD_IRepositoryInfo_getUsageFraction, Current) - Method in class ome.services.blitz.impl.RepositoryInfoI
-
- getUsedFilePaths() - Method in class omero.gateway.model.FilesetData
-
Returns the collection of file paths used for importing the files
(in case of in-place imports these are the targets of the (sym)links)
- getUsedFiles(String) - Method in class ome.formats.importer.ImportCandidates
-
Return string of files used by container item at path
- getUsedFiles() - Method in class ome.formats.importer.ImportContainer
-
Return a list of file names that belong to this import container.
- getUsedFilesTotalSize() - Method in class ome.formats.importer.ImportContainer
-
Returns the total size in bytes (based on File.length()
)
of all files in this import container.
- getUsedSpaceInKilobytes_async(AMD_IRepositoryInfo_getUsedSpaceInKilobytes, Current) - Method in class ome.services.blitz.impl.RepositoryInfoI
-
- getUseQuaqua() - Method in class ome.formats.importer.ImportConfig
-
- getUseQuaqua() - Method in class ome.formats.importer.util.IniFileLoader
-
- getUser() - Method in class omero.gateway.LoginCredentials
-
Returns the credentials.
- getUserDetails(SecurityContext, String) - Method in class omero.gateway.Gateway
-
Get the user details of a certain user
- getUserDisableHistory() - Method in class ome.formats.importer.ImportConfig
-
- getUserDisableHistory() - Method in class ome.formats.importer.util.IniFileLoader
-
- getUserFullPath() - Method in class ome.formats.importer.ImportConfig
-
Deprecated.
- getUserFullPath() - Method in class ome.formats.importer.util.IniFileLoader
-
Deprecated.
- getUserId() - Method in class omero.gateway.model.SearchParameters
-
- getUserImages(SecurityContext) - Method in class omero.gateway.facility.BrowseFacility
-
Loads all images of the logged in user
- getUserImages_async(AMD_IContainer_getUserImages, Parameters, Current) - Method in class ome.services.blitz.impl.ContainerI
-
- getUserInstitution(long, Current) - Method in interface ome.services.blitz.repo.RepositoryDao
-
Get the current user's institution.
- getUserInstitution(long, ServiceFactory) - Method in interface ome.services.blitz.repo.RepositoryDao
-
Get the current user's institution.
- getUserInstitution(long, Current) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
- getUserInstitution(long, ServiceFactory) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
- getUserName() - Method in class omero.gateway.model.ExperimenterData
-
Returns the last name of the experimenter.
- getUsername() - Method in class omero.gateway.UserCredentials
-
Returns the user name (or session ID, if it was set before instead of an
username)
- getUserPixels() - Method in class ome.formats.importer.ImportContainer
-
- getUserScripts_async(AMD_IScript_getUserScripts, List<IObject>, Current) - Method in class ome.services.blitz.impl.ScriptI
-
- getUserSettingsDirectory() - Method in class ome.formats.importer.ImportConfig
-
- getUserSettingsDirectory() - Method in class ome.formats.importer.util.IniFileLoader
-
- getUserSpecifiedAnnotations() - Method in interface ome.formats.model.IObjectContainerStore
-
Returns the user specified annotations.
- getUserSpecifiedAnnotations() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getUserSpecifiedDescription() - Method in class ome.formats.importer.ImportContainer
-
Retrieves the current custom image/plate description string.
- getUserSpecifiedDescription() - Method in interface ome.formats.model.IObjectContainerStore
-
Returns the user specified image/plate description.
- getUserSpecifiedDescription() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getUserSpecifiedImageName() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getUserSpecifiedName() - Method in class ome.formats.importer.ImportContainer
-
Retrieves the current custom image/plate name string.
- getUserSpecifiedName() - Method in interface ome.formats.model.IObjectContainerStore
-
Returns the user specified image/plate name.
- getUserSpecifiedName() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getUserSpecifiedPhysicalPixelSizes() - Method in interface ome.formats.model.IObjectContainerStore
-
Returns the user specified physical pixel sizes.
- getUserSpecifiedPhysicalPixelSizes() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getUserSpecifiedTarget() - Method in interface ome.formats.model.IObjectContainerStore
-
Returns the user-specified linkage target (usually a Dataset for Images)
and a Screen for Plates).
- getUserSpecifiedTarget() - Method in class ome.formats.OMEROMetadataStoreClient
-
- getUuid() - Method in class omero.gateway.model.ROIData
-
Get the UUID
- getValue() - Method in exception ome.formats.enums.EnumerationException
-
- getValue() - Method in enum ome.formats.Index
-
- getValue(Class<? extends IObject>, int) - Method in class ome.formats.OMEXMLModelComparator
-
Assigns a value to a particular class based on its location in the
OME-XML hierarchy.
- getValue() - Method in class omero.gateway.model.BooleanAnnotationData
-
Returns the text of this annotation.
- getValue(Current) - Method in class omero.model.ElectricPotentialI
-
- getValue(Current) - Method in class omero.model.FrequencyI
-
- getValue(Current) - Method in class omero.model.LengthI
-
- getValue(Current) - Method in class omero.model.PowerI
-
- getValue(Current) - Method in class omero.model.PressureI
-
- getValue(Current) - Method in class omero.model.TemperatureI
-
- getValue(Current) - Method in class omero.model.TimeI
-
- getVersion() - Method in class omero.gateway.model.DataObject
-
Returns the version of the object if the object is immutable,
false
otherwise.
- getVersion_async(AMD_IConfig_getVersion, Current) - Method in class ome.services.blitz.impl.ConfigI
-
- getVersionNote() - Method in class ome.formats.importer.util.IniFileLoader
-
- getVersionNumber() - Method in class ome.formats.importer.ImportConfig
-
- getVersionNumber() - Method in class ome.formats.importer.util.IniFileLoader
-
- getVoltage(UnitsElectricPotential) - Method in class omero.gateway.model.DetectorData
-
Returns the voltage of the detector.
- getWellOriginX(UnitsLength) - Method in class omero.gateway.model.PlateData
-
Returns the x-coordinate in 2D-space of the well.
- getWellOriginY(UnitsLength) - Method in class omero.gateway.model.PlateData
-
Returns the y-coordinate in 2D-space of the well.
- getWells(SecurityContext, Collection<Long>) - Method in class omero.gateway.facility.BrowseFacility
-
Loads the wells
- getWells(SecurityContext, long) - Method in class omero.gateway.facility.BrowseFacility
-
Loads the wells for a given plate
- getWellSamples() - Method in class omero.gateway.model.WellData
-
Returns the well samples linked to the well.
- getWellType() - Method in class omero.gateway.model.WellData
-
Returns a human readable identifier for the screening status e.g. empty,
positive control, etc.
- getWidth() - Method in class omero.gateway.model.MaskData
-
Returns the width of the mask.
- getWidth() - Method in class omero.gateway.model.RectangleData
-
Returns the width untransformed rectangle.
- getWorkingDistance(UnitsLength) - Method in class omero.gateway.model.ObjectiveData
-
Returns the working distance.
- getX() - Method in class omero.gateway.model.EllipseData
-
Returns the x-coordinate of the center of the ellipse.
- getX() - Method in class omero.gateway.model.MaskData
-
Returns the x-coordinate of the top-left corner of the mask.
- getX() - Method in class omero.gateway.model.PointData
-
Returns the x-coordinate of the shape.
- getX() - Method in class omero.gateway.model.RectangleData
-
Returns the x-coordinate of the top-left corner of an untransformed
rectangle.
- getX() - Method in class omero.gateway.model.TextData
-
Returns the x-coordinate text field.
- getX1() - Method in class omero.gateway.model.LineData
-
Returns the x-coordinate of the starting point of an untransformed line.
- getX2() - Method in class omero.gateway.model.LineData
-
Returns the x-coordinate of the end point of an untransformed line.
- getXMLAnnotationCount() - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getXMLAnnotationDescription(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getXMLAnnotationID(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getXMLAnnotationNamespace(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getXMLAnnotationValue(int) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- getY() - Method in class omero.gateway.model.EllipseData
-
Returns the y-coordinate of the center of the ellipse.
- getY() - Method in class omero.gateway.model.MaskData
-
Returns the y-coordinate of the top-left corner of the mask.
- getY() - Method in class omero.gateway.model.PointData
-
Returns the y coordinate of the shape.
- getY() - Method in class omero.gateway.model.RectangleData
-
Returns the y-coordinate of the top-left corner of an
untransformed rectangle.
- getY() - Method in class omero.gateway.model.TextData
-
Returns the y-coordinate text field.
- getY1() - Method in class omero.gateway.model.LineData
-
Returns the y-coordinate of the starting point of an untransformed line.
- getY2() - Method in class omero.gateway.model.LineData
-
Returns the y-coordinate of the end point of an untransformed line.
- getZ() - Method in class omero.gateway.model.ShapeData
-
Returns the z-section. -1 if the shape applies to all z-sections of
the image.
- getZoom() - Method in class omero.gateway.model.DetectorData
-
Returns the offset of the detector.
- getZSection() - Method in class omero.gateway.model.ROICoordinate
-
Returns the z-section.
(-1 == all z-sections)
- granted(int, int) - Method in class omero.model.PermissionsI
-
- GraphHelper - Class in omero.cmd.graphs
-
Factors common code out of GraphQuery
implementations for reuse.
- GraphHelper(Helper, GraphPathBean) - Constructor for class omero.cmd.graphs.GraphHelper
-
Construct a helper for a graph request instance.
- GraphRequestFactory - Class in omero.cmd.graphs
-
Create request objects that are executed using the GraphPathBean
.
- GraphRequestFactory(ACLVoter, Roles, GraphPathBean, LightAdminPrivileges, Deletion, Map<Class<? extends Request>, List<String>>, Map<Class<? extends Request>, List<GraphPolicyRule>>, List<String>, Set<String>) - Constructor for class omero.cmd.graphs.GraphRequestFactory
-
Construct a new graph request factory.
- GraphUtil - Class in omero.cmd.graphs
-
Static utility methods for model graph operations.
- GraphUtil() - Constructor for class omero.cmd.graphs.GraphUtil
-
- GREEN_INDEX - Static variable in class ome.formats.model.ColorsFactory
-
Index of the red component of a color.
- GREEN_TEXT - Static variable in class ome.formats.model.ChannelProcessor
-
Name of the green
component when it is a graphics image.
- group - Variable in class ome.formats.importer.ImportConfig
-
- GROUP_COLLAB_READ - Static variable in class ome.formats.importer.ImportEvent
-
- GROUP_COLLAB_READ_LINK - Static variable in class ome.formats.importer.ImportEvent
-
- GROUP_EXPERIMENTER_MAP - Static variable in class omero.gateway.model.ExperimenterData
-
Identifies the ExperimenterI.GROUPEXPERIMENTERMAP
field.
- GROUP_EXPERIMENTER_MAP - Static variable in class omero.gateway.model.GroupData
-
Identifies the ExperimenterGroupI.GROUPEXPERIMENTERMAP
field.
- GROUP_PRIVATE - Static variable in class ome.formats.importer.ImportEvent
-
- GROUP_PUBLIC - Static variable in class ome.formats.importer.ImportEvent
-
- GROUP_SYSTEM - Static variable in class ome.formats.importer.ImportEvent
-
- groupContext(Long, Current) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
Creates a copy of the Current.ctx
map and if groupId is
not null, sets the "omero.group" key to be a string version of the
id.
- GroupData - Class in omero.gateway.model
-
The data that makes up an OME Group along with the various members of
the Group
- GroupData() - Constructor for class omero.gateway.model.GroupData
-
Creates a new instance.
- GroupData(ExperimenterGroup) - Constructor for class omero.gateway.model.GroupData
-
Creates a new instance.
- grp(RLong) - Method in class omero.sys.ParametersI
-
Sets the value of the group
parameter.
- GUEST - Static variable in class omero.gateway.model.GroupData
-
Identifies the Guest
group.
- ice_exception(Exception) - Method in class ome.services.blitz.repo.PublicRepositoryI.AMD_submit
-
- ice_postUnmarshal() - Method in class omero.model.PermissionsI
-
Called as Ice converts from a binary stream to a PermissionsI object.
- ice_response(HandlePrx) - Method in class ome.services.blitz.repo.PublicRepositoryI.AMD_submit
-
- IceMapper - Class in omero.util
-
Responsible for the mapping of ome.* types to omero.* types and back again.
- IceMapper() - Constructor for class omero.util.IceMapper
-
- IceMapper(IceMapper.ReturnMapping) - Constructor for class omero.util.IceMapper
-
- IceMapper.ReturnMapping - Interface in omero.util
-
- IceMethodInvoker - Class in ome.services.blitz.util
-
Method
-cache primed either with an ServiceInterface
instance
or with a Class
with generic type ServiceInterface
.
- IceMethodInvoker(ServiceInterface, OmeroContext) - Constructor for class ome.services.blitz.util.IceMethodInvoker
-
- IceMethodInvoker(Class<S>, OmeroContext) - Constructor for class ome.services.blitz.util.IceMethodInvoker
-
- icMap - Variable in class ome.formats.importer.util.ErrorHandler
-
Host information about the file and its corresponding import candidate.
- id - Variable in class ome.services.blitz.repo.CheckedPath
-
- id - Variable in class ome.services.blitz.util.FindServiceFactoryMessage
-
- ignoreAnnotator(String, Object...) - Method in class ome.formats.OMEROMetadataStoreClient
-
For all cases of an annotator being ignore (WARN).
- ignoreInsecure(String, Object...) - Method in class ome.formats.OMEROMetadataStoreClient
-
Called when saving a property to OMERO would result in a SecurityViolation
(DEBUG).
- ignoreMissing(String, Object...) - Method in class ome.formats.OMEROMetadataStoreClient
-
Called when a property is missing from the OMERO model (WARN).
- ignoreType(Iterable<String>) - Method in class omero.gateway.util.Requests.DuplicateBuilder
-
- ignoreType(Class<? extends IObject>...) - Method in class omero.gateway.util.Requests.DuplicateBuilder
-
- ignoreType(String...) - Method in class omero.gateway.util.Requests.DuplicateBuilder
-
- IgnoreTypePolicy - Class in omero.cmd.graphs
-
- IgnoreTypePolicy() - Constructor for class omero.cmd.graphs.IgnoreTypePolicy
-
Deprecated.
- ignoreUnneeded(String, Object...) - Method in class ome.formats.OMEROMetadataStoreClient
-
Called when a property is not needed in OMERO since the data can
be gotten elsewhere, as in directly from the file itself (DEBUG).
- ignoreUnsupported(String, Object...) - Method in class ome.formats.OMEROMetadataStoreClient
-
Called when a property is not expected in a file to be imported.
- IHandle - Interface in omero.cmd
-
SPIOrthogonal interface hierarchy of types for working with the
Request
hierarchy.
- IllegalArgumentException - Exception in omero
-
- IllegalArgumentException(String) - Constructor for exception omero.IllegalArgumentException
-
- IMAGE - Static variable in class omero.gateway.model.PixelsData
-
Identifies the PixelsI.IMAGE
field.
- IMAGE_COLUMN_INDEX - Static variable in class omero.gateway.model.TableResult
-
Identifies the index of the Image
column.
- IMAGE_LINKS - Static variable in class omero.gateway.model.DatasetData
-
Identifies the DatasetI.IMAGELINKS
field.
- ImageAcquisitionData - Class in omero.gateway.model
-
Object hosting the acquisition metadata.
- ImageAcquisitionData(Image) - Constructor for class omero.gateway.model.ImageAcquisitionData
-
Creates a new instance.
- imageCount - Variable in class ome.formats.importer.ImportSize
-
- imageCount() - Method in class omero.gateway.model.FolderData
-
Get the number of images linked to this folder
- ImageData - Class in omero.gateway.model
-
The data that makes up an OME Image along with links to its Pixels,
enclosing Datasets, and the Experimenter that owns this Image.
- ImageData() - Constructor for class omero.gateway.model.ImageData
-
Creates a new instance.
- ImageData(Image) - Constructor for class omero.gateway.model.ImageData
-
Creates a new instance.
- imageID - Variable in class loci.ome.io.OMECredentials
-
Deprecated.
- ImageNameMetadataStore - Class in ome.formats
-
Stores all Image names consumed by the interface.
- ImageNameMetadataStore() - Constructor for class ome.formats.ImageNameMetadataStore
-
- ImagingEnvironment_AirPressure - Static variable in class ome.formats.model.UnitsFactory
-
- ImagingEnvironment_Temperature - Static variable in class ome.formats.model.UnitsFactory
-
- Impl(Communicator) - Constructor for class ome.services.blitz.fire.Registry.Impl
-
- Impl(Communicator) - Constructor for class ome.services.blitz.fire.TopicManager.Impl
-
- IMPORT_ARCHIVING(int, ImportContainer, IObject, Long, int, ImportSize) - Constructor for class ome.formats.importer.ImportEvent.IMPORT_ARCHIVING
-
- IMPORT_DONE(int, ImportContainer, IObject, Long, int, ImportSize, List<Pixels>, Fileset, List<IObject>) - Constructor for class ome.formats.importer.ImportEvent.IMPORT_DONE
-
- IMPORT_LOG_MIMETYPE - Static variable in class ome.services.blitz.repo.PublicRepositoryI
-
media type for import logs
- IMPORT_OVERLAYS(int, ImportContainer, IObject, Long, int, ImportSize) - Constructor for class ome.formats.importer.ImportEvent.IMPORT_OVERLAYS
-
- IMPORT_PROCESSING(int, ImportContainer, IObject, Long, int, ImportSize) - Constructor for class ome.formats.importer.ImportEvent.IMPORT_PROCESSING
-
- IMPORT_STARTED(int, ImportContainer, IObject, Long, int, ImportSize, Integer, Integer, Long) - Constructor for class ome.formats.importer.ImportEvent.IMPORT_STARTED
-
- IMPORT_STEP(int, int, int) - Constructor for class ome.formats.importer.ImportEvent.IMPORT_STEP
-
- IMPORT_SUMMARY(long, int) - Constructor for class ome.formats.importer.ImportEvent.IMPORT_SUMMARY
-
- ImportCallback(ImportProcessPrx, HandlePrx, ImportContainer) - Constructor for class ome.formats.importer.ImportLibrary.ImportCallback
-
- ImportCandidates - Class in ome.formats.importer
-
Utility class which given any File
object will determine the correct
number and members of a given import.
- ImportCandidates(OMEROWrapper, String[], IObserver) - Constructor for class ome.formats.importer.ImportCandidates
-
- ImportCandidates(int, OMEROWrapper, String[], IObserver) - Constructor for class ome.formats.importer.ImportCandidates
-
Main constructor which starts depth-first descent into all the paths
and permits a descent to the given depth.
- importCandidates(ImportConfig, ImportCandidates) - Method in class ome.formats.importer.ImportLibrary
-
Primary user method for importing a number of import candidates.
- ImportCandidates.CANCEL - Exception in ome.formats.importer
-
- ImportCandidates.SCANNING - Class in ome.formats.importer
-
Event raised during a pass through the directory structure given to
ImportCandidates
.
- ImportConfig - Class in ome.formats.importer
-
Utility class which configures the Import.
- ImportConfig() - Constructor for class ome.formats.importer.ImportConfig
-
- ImportConfig(File) - Constructor for class ome.formats.importer.ImportConfig
-
- ImportConfig(Preferences, IniFileLoader, Properties) - Constructor for class ome.formats.importer.ImportConfig
-
Complete constructor.
- ImportConfig.AnnotationListValue - Class in ome.formats.importer
-
- ImportConfig.BoolValue - Class in ome.formats.importer
-
- ImportConfig.DoubleArrayValue - Class in ome.formats.importer
-
- ImportConfig.FileValue - Class in ome.formats.importer
-
- ImportConfig.IntValue - Class in ome.formats.importer
-
- ImportConfig.LongValue - Class in ome.formats.importer
-
- ImportConfig.PassValue - Class in ome.formats.importer
-
- ImportConfig.StrValue - Class in ome.formats.importer
-
- ImportConfig.Value<T> - Class in ome.formats.importer
-
Container which thread-safely makes a generic configuration value
available, without requiring getters and setters.
- ImportConfig.VersionInfo - Enum in ome.formats.importer
-
Keys for fileset version information entries.
- ImportContainer - Class in ome.formats.importer
-
- ImportContainer(File, IObject, Double[], String, String[], Boolean) - Constructor for class ome.formats.importer.ImportContainer
-
- ImportContainer(ImportConfig, File, IObject, Double[], String, String[], Boolean) - Constructor for class ome.formats.importer.ImportContainer
-
- ImportEvent - Class in ome.formats.importer
-
- ImportEvent() - Constructor for class ome.formats.importer.ImportEvent
-
- ImportEvent.ADD - Class in ome.formats.importer
-
- ImportEvent.BEGIN_POST_PROCESS - Class in ome.formats.importer
-
- ImportEvent.BEGIN_SAVE_TO_DB - Class in ome.formats.importer
-
- ImportEvent.COUNT_EVENT - Class in ome.formats.importer
-
- ImportEvent.DATA_STORED - Class in ome.formats.importer
-
- ImportEvent.DATASET_STORED - Class in ome.formats.importer
-
- ImportEvent.DEBUG_SEND - Class in ome.formats.importer
-
- ImportEvent.END_POST_PROCESS - Class in ome.formats.importer
-
- ImportEvent.END_SAVE_TO_DB - Class in ome.formats.importer
-
- ImportEvent.ERRORS_COMPLETE - Class in ome.formats.importer
-
- ImportEvent.ERRORS_FAILED - Class in ome.formats.importer
-
- ImportEvent.ERRORS_PENDING - Class in ome.formats.importer
-
- ImportEvent.FILE_UPLOAD_BYTES - Class in ome.formats.importer
-
- ImportEvent.FILE_UPLOAD_CANCELLED - Class in ome.formats.importer
-
- ImportEvent.FILE_UPLOAD_COMPLETE - Class in ome.formats.importer
-
- ImportEvent.FILE_UPLOAD_ERROR - Class in ome.formats.importer
-
- ImportEvent.FILE_UPLOAD_EVENT - Class in ome.formats.importer
-
- ImportEvent.FILE_UPLOAD_FAILED - Class in ome.formats.importer
-
- ImportEvent.FILE_UPLOAD_FINISHED - Class in ome.formats.importer
-
- ImportEvent.FILE_UPLOAD_STARTED - Class in ome.formats.importer
-
- ImportEvent.FILESET_EXCLUSION - Class in ome.formats.importer
-
- ImportEvent.FILESET_UPLOAD_END - Class in ome.formats.importer
-
- ImportEvent.FILESET_UPLOAD_PREPARATION - Class in ome.formats.importer
-
- ImportEvent.FILESET_UPLOAD_START - Class in ome.formats.importer
-
- ImportEvent.IMPORT_ARCHIVING - Class in ome.formats.importer
-
- ImportEvent.IMPORT_DONE - Class in ome.formats.importer
-
- ImportEvent.IMPORT_OVERLAYS - Class in ome.formats.importer
-
- ImportEvent.IMPORT_PROCESSING - Class in ome.formats.importer
-
- ImportEvent.IMPORT_STARTED - Class in ome.formats.importer
-
- ImportEvent.IMPORT_STEP - Class in ome.formats.importer
-
- ImportEvent.IMPORT_SUMMARY - Class in ome.formats.importer
-
- ImportEvent.LOADED_IMAGE - Class in ome.formats.importer
-
- ImportEvent.LOADING_IMAGE - Class in ome.formats.importer
-
- ImportEvent.LOGGED_IN - Class in ome.formats.importer
-
- ImportEvent.LOGGED_OUT - Class in ome.formats.importer
-
- ImportEvent.METADATA_IMPORTED - Class in ome.formats.importer
-
- ImportEvent.METADATA_PROCESSED - Class in ome.formats.importer
-
- ImportEvent.OBJECTS_RETURNED - Class in ome.formats.importer
-
- ImportEvent.PIXELDATA_PROCESSED - Class in ome.formats.importer
-
- ImportEvent.POST_UPLOAD_EVENT - Class in ome.formats.importer
-
- ImportEvent.PROGRESS_EVENT - Class in ome.formats.importer
-
- ImportEvent.REIMPORT - Class in ome.formats.importer
-
- ImportEvent.THUMBNAILS_GENERATED - Class in ome.formats.importer
-
- importFileset(Fileset, ImportSettings, Current) - Method in class ome.services.blitz.repo.ManagedRepositoryI
-
Return a template based directory path.
- ImportFixture - Class in ome.formats.importer
-
test fixture for importing files without a GUI.
- ImportFixture(OMEROMetadataStoreClient, OMEROWrapper) - Constructor for class ome.formats.importer.ImportFixture
-
- importImage(ImportContainer, int, int, int) - Method in class ome.formats.importer.ImportLibrary
-
- importImage(ImportContainer, ExecutorService, int) - Method in class ome.formats.importer.ImportLibrary
-
Perform an image import uploading files if necessary.
- ImportLibrary - Class in ome.formats.importer
-
- ImportLibrary(OMEROMetadataStoreClient, OMEROWrapper) - Constructor for class ome.formats.importer.ImportLibrary
-
- ImportLibrary(OMEROMetadataStoreClient, OMEROWrapper, FileTransfer) - Constructor for class ome.formats.importer.ImportLibrary
-
The library will not close the client instance.
- ImportLibrary(OMEROMetadataStoreClient, OMEROWrapper, FileTransfer, int) - Constructor for class ome.formats.importer.ImportLibrary
-
- ImportLibrary(OMEROMetadataStoreClient, OMEROWrapper, FileTransfer, List<FileExclusion>, int) - Constructor for class ome.formats.importer.ImportLibrary
-
- ImportLibrary.ImportCallback - Class in ome.formats.importer
-
- importMetadata(MetadataImportJob) - Method in class ome.services.blitz.repo.ManagedImportRequestI
-
- importPaths(List<String>, Current) - Method in class ome.services.blitz.repo.ManagedRepositoryI
-
- ImportSize - Class in ome.formats.importer
-
Calculates the various dimensions of an image from a Pixels
instance.
- ImportSize(String, Pixels, String) - Constructor for class ome.formats.importer.ImportSize
-
- ImportTarget - Interface in ome.formats.importer.targets
-
- importTime - Variable in class ome.formats.importer.ImportEvent.IMPORT_SUMMARY
-
- IN_MEMORY - Static variable in interface omero.gateway.cache.CacheService
-
Indicates to cache data in memory only.
- includeNs(Iterable<String>) - Method in class omero.gateway.util.Requests.ChildOptionBuilder
-
- includeNs(String...) - Method in class omero.gateway.util.Requests.ChildOptionBuilder
-
- includeType(Iterable<String>) - Method in class omero.gateway.util.Requests.ChildOptionBuilder
-
- includeType(Class<? extends IObject>...) - Method in class omero.gateway.util.Requests.ChildOptionBuilder
-
- includeType(String...) - Method in class omero.gateway.util.Requests.ChildOptionBuilder
-
- index - Variable in class ome.formats.importer.ImportEvent.COUNT_EVENT
-
- index - Variable in class ome.formats.importer.ImportEvent.PROGRESS_EVENT
-
- Index - Enum in ome.formats
-
- index(IndexingJob) - Method in class ome.services.blitz.repo.ManagedImportRequestI
-
- indexObject_async(AMD_IUpdate_indexObject, IObject, Current) - Method in class ome.services.blitz.impl.UpdateI
-
- info(String, Object...) - Method in class omero.cmd.Helper
-
- info(Object, String) - Method in interface omero.log.Logger
-
Logs an info message.
- info(Object, LogMessage) - Method in interface omero.log.Logger
-
Logs an info message.
- info(Object, String) - Method in class omero.log.NullLogger
-
- info(Object, LogMessage) - Method in class omero.log.NullLogger
-
- info(Object, String) - Method in class omero.log.SimpleLogger
-
- info(Object, LogMessage) - Method in class omero.log.SimpleLogger
-
- IniFileLoader - Class in ome.formats.importer.util
-
This class loads in the default importer.ini file (or one specified from the
command line when starting the app)
- IniFileLoader(File) - Constructor for class ome.formats.importer.util.IniFileLoader
-
Load given file
- init(String) - Method in interface ome.formats.importer.targets.ImportTarget
-
- init(String) - Method in class ome.formats.importer.targets.ModelImportTarget
-
- init(String) - Method in class ome.formats.importer.targets.TemplateImportTarget
-
- init(ObjectAdapter, String) - Method in class ome.services.blitz.fire.Ring
-
Typically called from within
BlitzConfiguration
after the
communicator and adapter have been properly setup.
- init(Helper) - Method in class ome.services.blitz.impl.commands.SaveI
-
- init(String) - Method in class ome.services.blitz.repo.FileMaker
-
- init(String, boolean) - Method in class ome.services.blitz.repo.FileMaker
-
- init(Helper) - Method in class ome.services.blitz.repo.ManagedImportRequestI
-
- init(Helper) - Method in class ome.services.blitz.repo.RawAccessRequestI
-
- init(Helper) - Method in class omero.cmd.admin.CurrentSessionsRequestI
-
- init(Helper) - Method in class omero.cmd.admin.ResetPasswordRequestI
-
- init(Helper) - Method in class omero.cmd.admin.UpdateSessionTimeoutRequestI
-
- init(Helper) - Method in class omero.cmd.basic.DoAllI
-
- init(Helper) - Method in class omero.cmd.basic.ListRequestsI
-
- init(Helper) - Method in class omero.cmd.basic.TimingI
-
- init(Helper) - Method in class omero.cmd.fs.FindPyramidsI
-
- init(Helper) - Method in class omero.cmd.fs.ManageImageBinariesI
-
- init(Helper) - Method in class omero.cmd.fs.OriginalMetadataRequestI
-
- init(Helper) - Method in class omero.cmd.fs.UsedFilesRequestI
-
- init(Helper) - Method in class omero.cmd.graphs.Chgrp2I
-
- init() - Method in class omero.cmd.graphs.ChildOptionI
-
Initialize this child option instance.
- init(Helper) - Method in class omero.cmd.graphs.Chmod2I
-
- init(Helper) - Method in class omero.cmd.graphs.Chown2I
-
- init(Helper) - Method in class omero.cmd.graphs.Delete2I
-
- init(Helper) - Method in class omero.cmd.graphs.DiskUsage2I
-
- init(Helper) - Method in class omero.cmd.graphs.DiskUsageI
-
Deprecated.
- init(Helper) - Method in class omero.cmd.graphs.DuplicateI
-
- init(Helper) - Method in class omero.cmd.graphs.FindChildrenI
-
- init(Helper) - Method in class omero.cmd.graphs.FindParentsI
-
- init(Helper) - Method in class omero.cmd.graphs.LegalGraphTargetsI
-
- init(Helper) - Method in class omero.cmd.graphs.SkipHeadI
-
- init(Helper) - Method in interface omero.cmd.IRequest
-
Method called within the transaction boundaries before any processing occurs.
- init(Helper) - Method in class omero.cmd.mail.SendEmailRequestI
-
- initFile(String) - Method in class loci.ome.io.OmeroReader
-
Deprecated.
- initFile(String) - Method in class ome.services.formats.OmeroReader
-
- initializationDone() - Method in class omero.cmd.CmdCallbackI
-
- initialize(ServiceFactoryPrx) - Method in class ome.formats.OMEROMetadataStoreClient
-
Initializes the MetadataStore with an already logged in, ready to go
service factory.
- initialize(client) - Method in class ome.formats.OMEROMetadataStoreClient
-
Initializes the MetadataStore with an already logged in, ready to go
service factory.
- initialize(String, String, String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
Initializes the MetadataStore taking string parameters to feed to the
OMERO Blitz client object.
- initialize(String, String, String, int, boolean) - Method in class ome.formats.OMEROMetadataStoreClient
-
Initializes the MetadataStore taking string parameters to feed to the
OMERO Blitz client object.
- initialize(String, String, String, int, Long, boolean) - Method in class ome.formats.OMEROMetadataStoreClient
-
Initializes the MetadataStore taking string parameters to feed to the
OMERO Blitz client object.
- initialize(String, int, String) - Method in class ome.formats.OMEROMetadataStoreClient
-
Initializes the MetadataStore by joining an existing session.
- initialize(String, int, String, boolean) - Method in class ome.formats.OMEROMetadataStoreClient
-
Initializes the MetadataStore by joining an existing session.
- initialize(ServiceFactoryPrx, List<Pixels>, List<Long>) - Method in class ome.formats.OverlayMetadataStore
-
Initializes the metadata store implementation.
- initialize(Session) - Method in class ome.services.blitz.impl.OmeroMetadata
-
- initialize(String[], String[], Class[], Map<String, Object>) - Method in class ome.services.blitz.measurements.MeasurementStore
-
- initialize(String[], String[], Class[], Map<String, Object>) - Method in interface ome.services.blitz.measurements.OmeroMeasurementStore
-
- initialize(FileMaker, Long, String) - Method in class ome.services.blitz.repo.ManagedRepositoryI
-
- initialize(FileMaker, Long, String) - Method in class ome.services.blitz.repo.PublicRepositoryI
-
Called by the internal repository once initialization has taken place.
- initialize(Identity, IRequest, Map<String, String>) - Method in class omero.cmd.HandleI
-
- initialize(Identity, IRequest, Map<String, String>) - Method in interface omero.cmd.IHandle
-
Must be called on all instances exactly once before processing.
- initializeRedirect(Redirector.Context, String) - Method in class ome.services.blitz.redirect.AbstractRedirector
-
Set the new redirect value if null, or if the uuid is null or empty, then
the existing redirect will be removed.
- initialPoll() - Method in class omero.cmd.CmdCallbackI
-
Called at the end of construction to check a race condition.
- insertEntity(String) - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- INSIGHT_PUBLISHED_NS - Static variable in class omero.gateway.model.BooleanAnnotationData
-
The name space used to indicate that the tag is used a tag set.
- INSIGHT_RATING_NS - Static variable in class omero.gateway.model.RatingAnnotationData
-
The name space used to identify the archived annotation linked to a set
of pixels.
- INSIGHT_TAGSET_NS - Static variable in class omero.gateway.model.TagAnnotationData
-
The name space used to indicate that the tag is used a tag set.
- InstanceProvider - Interface in ome.formats.model
-
An instance provider, whose job is to make OMERO Blitz classes available
to a consumer based on a set of criteria.
- INSTITUTION - Static variable in class omero.gateway.model.ExperimenterData
-
Identifies the ExperimenterI.INSTITUTION
field.
- InstrumentData - Class in omero.gateway.model
-
Hosts the instrument used to capture an image.
- InstrumentData(Instrument) - Constructor for class omero.gateway.model.InstrumentData
-
Creates a new instance.
- InstrumentProcessor - Class in ome.formats.model
-
Processes the members of an Instrument (Objective, OTF, Arc Laser and
Filament) and ensures that the Instrument containers are present in the
container cache, adding them if they are missing.
- InstrumentProcessor() - Constructor for class ome.formats.model.InstrumentProcessor
-
- INT16_TYPE - Static variable in class omero.gateway.model.PixelsData
-
Identifies the type used to store pixel values.
- INT32_TYPE - Static variable in class omero.gateway.model.PixelsData
-
Identifies the type used to store pixel values.
- INT8_TYPE - Static variable in class omero.gateway.model.PixelsData
-
Identifies the type used to store pixel values.
- INT_16 - Static variable in class omero.gateway.rnd.DataSink
-
Identifies the type used to store pixel values.
- INT_32 - Static variable in class omero.gateway.rnd.DataSink
-
Identifies the type used to store pixel values.
- INT_8 - Static variable in class omero.gateway.rnd.DataSink
-
Identifies the type used to store pixel values.
- IntConverter - Class in omero.gateway.rnd
-
Packs a sequence of bytes representing a signed (2's complement)
big-endian integer into an integer value of appropriate integer value.
- IntConverter() - Constructor for class omero.gateway.rnd.IntConverter
-
- InteractiveProcessorI - Class in omero.grid
-
Processor
implementation which delegates to an omero.grid.Processor
servant.
- InteractiveProcessorI(Principal, SessionManager, Executor, ProcessorPrx, Job, long, SessionControlPrx, ParamsCache, ParamsHelper, ScriptRepoHelper, Current) - Constructor for class omero.grid.InteractiveProcessorI
-
- interceptor - Variable in class ome.services.blitz.impl.ScriptI
-
- interceptor - Variable in class ome.services.blitz.repo.RepositoryDaoImpl
-
- INTERNAL_EXCEPTION(String, Exception, String[], String) - Constructor for class ome.formats.importer.util.ErrorHandler.INTERNAL_EXCEPTION
-
- internalMkdir(CheckedPath) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
This method should only be used by the register public method in order to
guarantee that the DB is kept in sync with the file system.
- InternalRepositoryConfig - Class in ome.services.blitz.repo
-
Simple configuration class which is created via repository.xml Spring
configuration file after the OMERO.repository context is loaded.
- InternalRepositoryConfig(String) - Constructor for class ome.services.blitz.repo.InternalRepositoryConfig
-
- InternalRepositoryI - Class in ome.services.blitz.repo
-
Standalone repository service.
- InternalRepositoryI(ObjectAdapter, Registry, Executor, Principal, String, PublicRepositoryI) - Constructor for class ome.services.blitz.repo.InternalRepositoryI
-
Deprecated.
- InternalRepositoryI(ObjectAdapter, Registry, Executor, Principal, String, ReadOnlyStatus, PublicRepositoryI) - Constructor for class ome.services.blitz.repo.InternalRepositoryI
-
- internalServantConfig(Object) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- internalServantConfig(Object) - Method in class omero.cmd.SessionI
-
- InThreadThrottlingStrategy - Class in ome.services.throttling
-
Throttling implementation which uses the calling server Thread
for
execution.
- InThreadThrottlingStrategy(CurrentDetails) - Constructor for class ome.services.throttling.InThreadThrottlingStrategy
-
- IntValue(String, ImportConfig, int) - Constructor for class ome.formats.importer.ImportConfig.IntValue
-
- IntValue(String, ImportConfig, int, String) - Constructor for class ome.formats.importer.ImportConfig.IntValue
-
- invalidateConnection_async(AMD_IShare_invalidateConnection, long, Experimenter, Current) - Method in class ome.services.blitz.impl.ShareI
-
- invoke(MethodInvocation) - Method in class ome.services.blitz.fire.AopContextInitializer
-
- invoke(Object, Current, IceMapper, Object...) - Method in class ome.services.blitz.util.IceMethodInvoker
-
Calls the method named in
Current.operation
with the
arguments provided mapped via the
IceMapper
instance.
- invoke(MethodInvocation) - Method in class omero.cmd.CallContext
-
- invoker - Variable in class ome.services.blitz.impl.AbstractAmdServant
-
If a service is provided, then an invoker will be created to cache all of
its methods.
- IObjectContainerStore - Interface in ome.formats.model
-
An object that handles the storage and manipulation of IObject containers
and their references.
- IObservable - Interface in ome.formats.importer
-
- IObserver - Interface in ome.formats.importer
-
- IQueryEnumProvider - Class in ome.formats.enums
-
An enumeration provider which uses IQuery and a cache to fulfill the
contract of an EnumerationProvider.
- IQueryEnumProvider(IQueryPrx) - Constructor for class ome.formats.enums.IQueryEnumProvider
-
Default IQuery based enumeration provider constructor.
- IRequest - Interface in omero.cmd
-
SPI Orthogonal interface hierarchy of types for working with the
Request
hierarchy.
- isAcceptable(List<String>) - Method in class ome.services.blitz.repo.path.MakeNextDirectory
-
If the circumstances (filesystem, etc.) are such that it is okay to use the given subdirectories.
- isAccepted(boolean, String, String, Current) - Method in class ome.services.blitz.impl.ProcessorCallbackI
-
Deprecated.
- isActive() - Method in class omero.gateway.model.ExperimenterData
-
Returns true
if the experimenter is active,
false
otherwise.
- isActive_async(AMD_RenderingEngine_isActive, int, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- isAdjustedAfterReview(GraphPolicy.Details) - Method in class omero.cmd.graphs.BaseGraphPolicyAdjuster
-
An opportunity to adjust each model object after the graph policy reviews it.
- isAdjustedBeforeReview(GraphPolicy.Details) - Method in class omero.cmd.graphs.BaseGraphPolicyAdjuster
-
An opportunity to adjust each model object before the graph policy reviews it.
- isAlive(SecurityContext) - Method in class omero.gateway.Gateway
-
- isAllowLeadingWildcard_async(AMD_Search_isAllowLeadingWildcard, Current) - Method in class ome.services.blitz.impl.SearchI
-
- isArchived() - Method in class omero.gateway.model.ImageData
-
Returns true
if the image has been archived,
false
otherwise.
- isAvailable() - Method in class omero.gateway.util.NetworkChecker
-
Checks the network is available or not.
- isCancelled() - Method in class omero.cmd.CmdCallbackI
-
Returns whether Status::CANCELLED is contained in
the flags variable of the Status instance.
- isCaseSensitive_async(AMD_Search_isCaseSensitive, Current) - Method in class ome.services.blitz.impl.SearchI
-
- isCheckNetwork() - Method in class omero.gateway.LoginCredentials
-
- isClientObject() - Method in class omero.gateway.model.ShapeData
-
Returns true
if the object one that has been created client
side.
- isClientSide() - Method in class omero.gateway.model.ROIData
-
Returns true
if the object a client-side object,
false
otherwise.
- isCompleted() - Method in class omero.gateway.model.TableData
-
- isCondition(String) - Method in class omero.cmd.graphs.BaseGraphPolicyAdjuster
-
- isConnected() - Method in class omero.gateway.Gateway
-
Check if the Gateway is still connected to the server
- isDebugConsole() - Method in class ome.formats.importer.util.IniFileLoader
-
- isDebugUI() - Method in class ome.formats.importer.util.IniFileLoader
-
- isDetectorSettingsDirty() - Method in class omero.gateway.model.ChannelAcquisitionData
-
Returns true
if the detector settings has been updated,
false
otherwise.
- isDirectory() - Method in class ome.services.blitz.repo.CheckedPath
-
- isDirectory() - Method in class omero.gateway.model.FileData
-
Returns true
if the file is a directory, false
otherwise.
- isDirty() - Method in class omero.gateway.model.DataObject
-
Returns true
if setter value has modified the value of the
stored IObject, false
otherwise.
- isDisallow(int, Current) - Method in class omero.model.PermissionsI
-
- isEmpty() - Method in class omero.gateway.model.TableData
-
- isEncryptedConnection() - Method in class ome.formats.OMEROMetadataStoreClient
-
- isEncryption() - Method in class omero.gateway.LoginCredentials
-
- isEndTime() - Method in class omero.sys.ParametersI
-
Returns true
if the map contains the end time
parameter, false
otherwise.
- isError() - Method in class omero.gateway.model.SearchResultCollection
-
- isExperimenter() - Method in class omero.sys.ParametersI
-
Returns true
if the filter contains and ownerId
parameter, false
otherwise.
- isFailure() - Method in class omero.cmd.CmdCallbackI
-
Returns whether Status::FAILURE is contained in
the flags variable of the Status instance.
- isFloat_async(AMD_RawPixelsStore_isFloat, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- isFloat_async(AMD_RawPixelsStore_isFloat, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- isFontBold() - Method in class omero.gateway.model.ShapeSettingsData
-
Returns true
if it is bold, false
otherwise.
- isFontItalic() - Method in class omero.gateway.model.ShapeSettingsData
-
Returns true
if it is italic, false
otherwise.
- isFSImage() - Method in class omero.gateway.model.ImageData
-
Returns true
is the image has been imported the new
import strategy known as FS import, false
if imported
using the previous import approach (data duplication).
- isFullAdmin(SecurityContext) - Method in class omero.gateway.facility.AdminFacility
-
Checks if the currently logged in user has full admin privileges
- isFullAdmin(SecurityContext, ExperimenterData) - Method in class omero.gateway.facility.AdminFacility
-
Checks if a user has full admin privileges
- isGroup() - Method in class omero.sys.ParametersI
-
Returns true
if the filter contains an groupId
,
false
otherwise.
- isGroupAnnotate() - Method in class omero.gateway.model.PermissionData
-
Returns true
if the group has annotate access i.e.
- isGroupAnnotate(Current) - Method in class omero.model.PermissionsI
-
- isGroupRead() - Method in class omero.gateway.model.PermissionData
-
Returns true
if the group has read access
i.e.
- isGroupRead(Current) - Method in class omero.model.PermissionsI
-
- isGroupWrite() - Method in class omero.gateway.model.PermissionData
-
Returns true
if the group has write access i.e.
- isGroupWrite(Current) - Method in class omero.model.PermissionsI
-
- isHidden() - Method in class omero.gateway.model.FileData
-
Returns true
if the file is hidden, false
otherwise.
- isIdMatch() - Method in class omero.gateway.model.SearchResult
-
Indicates if this result is an ID match
- isImagingEnvironmentDirty() - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns true
if the StageLabel has been updated,
false
otherwise.
- isImmutable(Object) - Method in class omero.util.IceMapper
-
- isIncludeType(Class<? extends IObject>) - Method in class omero.cmd.graphs.ChildOptionI
-
Test if this child option adjusts graph traversal policy for the given child object class.
- isInProgress_async(AMD_ThumbnailStore_isInProgress, Current) - Method in class ome.services.blitz.impl.ThumbnailStoreI
-
- isLast(int) - Method in class omero.cmd.Helper
-
Returns true if this is the last step for the given request.
- isLDAP() - Method in class omero.gateway.model.ExperimenterData
-
Returns true
if the user is connected via LDAP.
- isLegalFsFile(FsFile) - Method in class ome.services.blitz.repo.path.ServerFilePathTransformer
-
Test if the given
FsFile
has been properly sanitized by the client.
- isLeicaReader() - Method in class ome.formats.importer.OMEROWrapper
-
- isLifetime() - Method in class omero.gateway.model.ImageData
-
Returns true
if the image is a lifetime image,
false
otherwise.
- isLightSourceSettingsDirty() - Method in class omero.gateway.model.ChannelAcquisitionData
-
Returns true
if the light source settings has been updated,
false
otherwise.
- isLinux() - Static method in class ome.services.blitz.util.CurrentPlatform
-
- isLoaded() - Method in class omero.gateway.model.DataObject
-
Returns true
if the object is loaded, false
otherwise.
- isMacOSX() - Static method in class ome.services.blitz.util.CurrentPlatform
-
- isMemberOfGroup(long) - Method in class omero.gateway.model.ExperimenterData
-
Checks if supplied group id matches any group to which the current
experimenter belongs to.
- isMergedBatches_async(AMD_Search_isMergedBatches, Current) - Method in class ome.services.blitz.impl.SearchI
-
- isMinMaxSet() - Method in class ome.formats.importer.OMEROWrapper
-
- isMovieFile() - Method in class omero.gateway.model.FileAnnotationData
-
Returns true
if it is a movie file.
- isNetworkUp(boolean) - Method in class omero.gateway.Gateway
-
Checks if the network interface is up.
- isNetworkup(boolean) - Method in class omero.gateway.util.NetworkChecker
-
Returns true
if the network is still up, otherwise throws an
UnknownHostException
.
- isNullablePrimitive(Class<?>) - Static method in class omero.util.IceMapper
-
- isObjectiveSettingsDirty() - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns true
if the objective settings has been updated,
false
otherwise.
- isOMERO - Variable in class loci.ome.io.OMECredentials
-
Deprecated.
- isPagination() - Method in class omero.sys.ParametersI
-
Returns true
if the filter contains a limit
OR a offset
, false
otherwise.
- isPixelsTypeSigned_async(AMD_RenderingEngine_isPixelsTypeSigned, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- isPrimitive(Class<?>) - Method in class omero.util.IceMapper
-
- isProxyAccepted(boolean, String, ProcessorPrx, Current) - Method in class ome.services.blitz.impl.ProcessorCallbackI
-
Callback method called by the remote processor instance.
- isReadOnly(ReadOnlyStatus) - Method in class omero.cmd.admin.CurrentSessionsRequestI
-
- isReadOnly(ReadOnlyStatus) - Method in class omero.cmd.basic.DoAllI
-
- isReadOnly(ReadOnlyStatus) - Method in class omero.cmd.fs.FindPyramidsI
-
- isReadOnly(ReadOnlyStatus) - Method in class omero.cmd.fs.OriginalMetadataRequestI
-
- isReadOnly(ReadOnlyStatus) - Method in class omero.cmd.fs.UsedFilesRequestI
-
- isReadOnly(ReadOnlyStatus) - Method in class omero.cmd.graphs.Chgrp2I
-
- isReadOnly(ReadOnlyStatus) - Method in class omero.cmd.graphs.Chmod2I
-
- isReadOnly(ReadOnlyStatus) - Method in class omero.cmd.graphs.Chown2I
-
- isReadOnly(ReadOnlyStatus) - Method in class omero.cmd.graphs.Delete2I
-
- isReadOnly(ReadOnlyStatus) - Method in class omero.cmd.graphs.DiskUsage2I
-
- isReadOnly(ReadOnlyStatus) - Method in class omero.cmd.graphs.DiskUsageI
-
Deprecated.
- isReadOnly(ReadOnlyStatus) - Method in class omero.cmd.graphs.DuplicateI
-
- isReadOnly(ReadOnlyStatus) - Method in class omero.cmd.graphs.FindChildrenI
-
- isReadOnly(ReadOnlyStatus) - Method in class omero.cmd.graphs.FindParentsI
-
- isReadOnly(ReadOnlyStatus) - Method in class omero.cmd.graphs.LegalGraphTargetsI
-
- isReadOnly(ReadOnlyStatus) - Method in class omero.cmd.graphs.SkipHeadI
-
- isReadOnly(ReadOnlyStatus) - Method in class omero.cmd.mail.SendEmailRequestI
-
- isReadOnly() - Method in class omero.gateway.model.ShapeData
-
Returns true
if the object a read-only object,
false
otherwise.
- isRestricted(String, Current) - Method in class omero.model.PermissionsI
-
- isReturnUnloaded_async(AMD_Search_isReturnUnloaded, Current) - Method in class ome.services.blitz.impl.SearchI
-
- isRoot - Variable in class ome.services.blitz.repo.CheckedPath
-
- isSame(long) - Method in class omero.gateway.rnd.DataSink
-
Returns true
if a data source has already been created
for the specified pixels set, false
otherwise.
- isSecure() - Method in class omero.client
-
- isSend(int) - Method in class ome.formats.importer.util.ErrorHandler
-
Check if files need sending at error container index
- isSigned_async(AMD_RawPixelsStore_isSigned, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- isSigned_async(AMD_RawPixelsStore_isSigned, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- isSPWReader() - Method in class ome.formats.importer.OMEROWrapper
-
- isStageLabelDirty() - Method in class omero.gateway.model.ImageAcquisitionData
-
Returns true
if the position has been updated,
false
otherwise.
- isStartTime() - Method in class omero.sys.ParametersI
-
Returns true
if the map contains the start time
parameter, false
otherwise.
- isStatisticsEnabled() - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
Are statistics logged
- isSudo() - Method in class omero.gateway.SecurityContext
-
Returns true
if a session has to be created for another
user, false
otherwise.
- isTargetNamespace(String) - Method in class omero.cmd.graphs.ChildOptionI
-
Test if this child option adjusts graph traversal policy for child objects that are annotations in the given namespace.
- isThisType(String, boolean) - Method in class loci.ome.io.OmeroReader
-
Deprecated.
- isThisType(String, boolean) - Method in class ome.services.formats.OmeroReader
-
- isThisType(RandomAccessInputStream) - Method in class ome.services.formats.OmeroReader
-
- isUnknown() - Static method in class ome.services.blitz.util.CurrentPlatform
-
- isUpgradeNeeded() - Method in class ome.formats.importer.ImportConfig
-
Check online to see if this is the current version
- isUseProjections_async(AMD_Search_isUseProjections, Current) - Method in class ome.services.blitz.impl.SearchI
-
- isUserAnnotate(Current) - Method in class omero.model.PermissionsI
-
- isUserRead() - Method in class omero.gateway.model.PermissionData
-
Returns true
if the user has read access,
false
otherwise.
- isUserRead(Current) - Method in class omero.model.PermissionsI
-
- isUserWrite() - Method in class omero.gateway.model.PermissionData
-
Returns true
if the user has write access,
false
otherwise.
- isUserWrite(Current) - Method in class omero.model.PermissionsI
-
- isValid() - Method in class omero.gateway.model.SearchParameters
-
Returns true
if the context of the search is valid i.e.
- isVoid(Current) - Method in class ome.services.blitz.util.IceMethodInvoker
-
Checks for a void return type, which is needed to know what type of
ice_response() method to invoke.
- isVoid - Variable in class ome.services.throttling.Task
-
- isVoid() - Method in class omero.util.IceMapper
-
Returns true only if the current mapping is the
IceMapper.VOID
mapping.
- isWindows() - Method in class ome.formats.importer.transfers.AbstractFileTransfer
-
Uses os.name to determine whether or not this JVM is running
under Windows.
- isWindows() - Static method in class ome.services.blitz.util.CurrentPlatform
-
- isWorldAnnotate(Current) - Method in class omero.model.PermissionsI
-
- isWorldRead() - Method in class omero.gateway.model.PermissionData
-
Returns true
if the world has read access,
false
otherwise.
- isWorldRead(Current) - Method in class omero.model.PermissionsI
-
- isWorldWrite() - Method in class omero.gateway.model.PermissionData
-
Returns true
if the world has write access,
false
otherwise.
- isWorldWrite(Current) - Method in class omero.model.PermissionsI
-
- isWrapperArray(Class<?>) - Static method in class omero.util.IceMapper
-
- safeCharacter - Variable in class ome.services.blitz.repo.path.FilePathRestrictions
-
- safeCharacters - Variable in class ome.services.blitz.repo.path.FilePathRestrictions
-
- safeRunnableCall(Current, Object, boolean, Callable<R>) - Method in class ome.services.blitz.impl.AbstractAmdServant
-
- safeRunnableCall(Current, Object, boolean, Callable<R>) - Method in interface ome.services.blitz.util.BlitzExecutor
-
- safeRunnableCall(Current, Object, boolean, Callable<R>) - Method in class ome.services.throttling.InThreadThrottlingStrategy
-
- safeRunnableCall(Current, Object, boolean, Callable<R>) - Method in class ome.services.throttling.SerialThrottlingStrategy
-
- sanityCheckPixels_async(AMD_IRenderingSettings_sanityCheckPixels, Pixels, Pixels, Current) - Method in class ome.services.blitz.impl.RenderingSettingsI
-
- sanityCheckRepository_async(AMD_IRepositoryInfo_sanityCheckRepository, Current) - Method in class ome.services.blitz.impl.RepositoryInfoI
-
- save() - Method in class ome.formats.importer.transfers.TransferState
-
Calls RawFileStorePrx.save()
and stores the resultant
OriginalFile
for future inspection along with the local
checksum.
- save() - Method in class ome.services.blitz.measurements.MeasurementStore
-
- save() - Method in interface ome.services.blitz.measurements.OmeroMeasurementStore
-
- save_async(AMD_RawFileStore_save, Current) - Method in class ome.services.blitz.impl.RawFileStoreI
-
- save_async(AMD_RawPixelsStore_save, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- save_async(AMD_RawPixelsStore_save, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- saveAll() - Method in class ome.formats.importer.ImportConfig
-
- saveAndReturnArray_async(AMD_IUpdate_saveAndReturnArray, List<IObject>, Current) - Method in class ome.services.blitz.impl.UpdateI
-
- saveAndReturnIds_async(AMD_IUpdate_saveAndReturnIds, List<IObject>, Current) - Method in class ome.services.blitz.impl.UpdateI
-
- saveAndReturnObject(SecurityContext, IObject, Map) - Method in class omero.gateway.facility.DataManagerFacility
-
Updates the specified object.
- saveAndReturnObject(SecurityContext, DataObject) - Method in class omero.gateway.facility.DataManagerFacility
-
Updates the specified object.
- saveAndReturnObject(SecurityContext, IObject) - Method in class omero.gateway.facility.DataManagerFacility
-
Updates the specified object.
- saveAndReturnObject(SecurityContext, IObject, Map, String) - Method in class omero.gateway.facility.DataManagerFacility
-
Updates the specified object.
- saveAndReturnObject(SecurityContext, DataObject, String) - Method in class omero.gateway.facility.DataManagerFacility
-
Updates the specified object.
- saveAndReturnObject(SecurityContext, IObject, String) - Method in class omero.gateway.facility.DataManagerFacility
-
Updates the specified object.
- saveAndReturnObject(SecurityContext, List<IObject>, Map, String) - Method in class omero.gateway.facility.DataManagerFacility
-
Updates the specified object.
- saveAndReturnObject_async(AMD_IUpdate_saveAndReturnObject, IObject, Current) - Method in class ome.services.blitz.impl.UpdateI
-
- saveArray_async(AMD_IUpdate_saveArray, List<IObject>, Current) - Method in class ome.services.blitz.impl.UpdateI
-
- saveAsNewSettings_async(AMD_RenderingEngine_saveAsNewSettings, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- saveCollection_async(AMD_IUpdate_saveCollection, List<IObject>, Current) - Method in class ome.services.blitz.impl.UpdateI
-
- saveCurrentSettings_async(AMD_RenderingEngine_saveCurrentSettings, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- savedDataset - Variable in class ome.formats.importer.ImportConfig
-
- savedDirectory - Variable in class ome.formats.importer.ImportConfig
-
- savedImagesNotInPlates - Variable in class ome.services.blitz.impl.MetadataStoreI
-
- savedPlates - Variable in class ome.services.blitz.impl.MetadataStoreI
-
- savedProject - Variable in class ome.formats.importer.ImportConfig
-
- savedScreen - Variable in class ome.formats.importer.ImportConfig
-
- saveFileset(String, Fileset, ChecksumAlgorithm, List<CheckedPath>, Current) - Method in interface ome.services.blitz.repo.RepositoryDao
-
Fill the various fields of the Fileset
and then save the
entire instance into the database.
- saveFileset(String, Fileset, ChecksumAlgorithm, List<CheckedPath>, Current) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
- saveGui() - Method in class ome.formats.importer.ImportConfig
-
Saves gui specific values for which it makes sense to have a preferences values.
- SaveI - Class in ome.services.blitz.impl.commands
-
Permits saving a single IObject instance.
- SaveI() - Constructor for class ome.services.blitz.impl.commands.SaveI
-
- saveJob(T, Current) - Method in interface ome.services.blitz.repo.RepositoryDao
-
Create a job from an instance provided by either the client or the
server.
- saveJob(Job, Current) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
- saveObject(IObject, Current) - Method in interface ome.services.blitz.repo.RepositoryDao
-
Save the given model object.
- saveObject(IObject, Current) - Method in class ome.services.blitz.repo.RepositoryDaoImpl
-
- saveObject_async(AMD_IUpdate_saveObject, IObject, Current) - Method in class ome.services.blitz.impl.UpdateI
-
- saveOmeroRoiToMetadataStore(List<Roi>, MetadataStore) - Static method in class loci.ome.io.OmeroReader
-
Deprecated.
Converts omero.model.Roi to ome.xml.model.* and updates the MetadataStore
- saveRndSettings_async(AMD_IPixels_saveRndSettings, RenderingDef, Current) - Method in class ome.services.blitz.impl.PixelsI
-
- saveROIs(SecurityContext, long, Collection<ROIData>) - Method in class omero.gateway.facility.ROIFacility
-
Save the ROI for the image to the server.
- saveROIs(SecurityContext, long, long, Collection<ROIData>) - Method in class omero.gateway.facility.ROIFacility
-
Save the ROI for the image to the server.
- saveToDB(FilesetJobLink) - Method in class ome.formats.OMEROMetadataStoreClient
-
Updates the server side MetadataStore with a list of our objects and
references and saves them into the database.
- saveToDB_async(AMD_MetadataStore_saveToDB, FilesetJobLink, Current) - Method in class ome.services.blitz.impl.MetadataStoreI
-
- ScaleRedirector - Class in ome.services.blitz.redirect
-
Planned implementation (NYI): will use the "Node.scale" column to randomly
choose a target.
- ScaleRedirector(Executor) - Constructor for class ome.services.blitz.redirect.ScaleRedirector
-
- SCANNING(File, int, int, int) - Constructor for class ome.formats.importer.ImportCandidates.SCANNING
-
- SCREEN_LINKS - Static variable in class omero.gateway.model.PlateData
-
Identifies the PlateI.SCREENLINKS
field.
- ScreenData - Class in omero.gateway.model
-
The data that makes up an OME Screen along with links to its
contained Plates and the Experimenter that owns this Screen.
- ScreenData() - Constructor for class omero.gateway.model.ScreenData
-
Creates a new instance.
- ScreenData(Screen) - Constructor for class omero.gateway.model.ScreenData
-
Creates a new instance.
- script(ScriptJob) - Method in class ome.services.blitz.repo.ManagedImportRequestI
-
- ScriptFinder - Class in ome.services.scripts
-
Looks up an official script based on path for internal use.
- ScriptFinder(Roles, String, Executor, File) - Constructor for class ome.services.scripts.ScriptFinder
-
- ScriptFinder(Roles, Principal, Executor, File) - Constructor for class ome.services.scripts.ScriptFinder
-
- ScriptI - Class in ome.services.blitz.impl
-
implementation of the IScript service interface.
- ScriptI(BlitzExecutor, ScriptRepoHelper, ACLVoter, OmeroInterceptor, ChecksumProviderFactory, ParamsCache) - Constructor for class ome.services.blitz.impl.ScriptI
-
- ScriptProcessI - Class in ome.services.blitz.impl
-
- ScriptProcessI(ServiceFactoryI, Current, InteractiveProcessorPrx, _InteractiveProcessorOperations, ProcessPrx) - Constructor for class ome.services.blitz.impl.ScriptProcessI
-
- ScriptRepositoryI - Class in ome.services.blitz.repo
-
Repository which makes the included script files available to users.
- ScriptRepositoryI(ObjectAdapter, Registry, Executor, Principal, ScriptRepoHelper, PublicRepositoryI, Set<String>) - Constructor for class ome.services.blitz.repo.ScriptRepositoryI
-
Deprecated.
- ScriptRepositoryI(ObjectAdapter, Registry, Executor, Principal, ScriptRepoHelper, ReadOnlyStatus, PublicRepositoryI, Set<String>) - Constructor for class ome.services.blitz.repo.ScriptRepositoryI
-
- scripts - Variable in class ome.services.blitz.impl.ScriptI
-
- search(SecurityContext, SearchParameters) - Method in class omero.gateway.facility.SearchFacility
-
Searches for data.
- searchAll_async(AMD_ILdap_searchAll, Current) - Method in class ome.services.blitz.impl.LdapI
-
- searchByAttribute_async(AMD_ILdap_searchByAttribute, String, String, String, Current) - Method in class ome.services.blitz.impl.LdapI
-
- searchByAttributes_async(AMD_ILdap_searchByAttributes, String, List<String>, List<String>, Current) - Method in class ome.services.blitz.impl.LdapI
-
- searchByDN_async(AMD_ILdap_searchByDN, String, Current) - Method in class ome.services.blitz.impl.LdapI
-
- searchDnInGroups_async(AMD_ILdap_searchDnInGroups, String, String, Current) - Method in class ome.services.blitz.impl.LdapI
-
- SearchFacility - Class in omero.gateway.facility
-
- SearchI - Class in ome.services.blitz.impl
-
Implementation of the Search service.
- SearchI(Search, BlitzExecutor) - Constructor for class ome.services.blitz.impl.SearchI
-
- SearchParameters - Class in omero.gateway.model
-
- SearchParameters(Set<SearchScope>, List<Class<? extends DataObject>>, String) - Constructor for class omero.gateway.model.SearchParameters
-
Creates a new instance.
- SearchResult - Class in omero.gateway.model
-
Encapsulates a single object found by a search together with the search scope
(name, description, etc.) it was found with.
- SearchResult() - Constructor for class omero.gateway.model.SearchResult
-
Create a new instance
- SearchResult(int, Class<? extends DataObject>, long, long) - Constructor for class omero.gateway.model.SearchResult
-
Create a new instance
- SearchResultCollection - Class in omero.gateway.model
-
Holds the results of a search; a collection of
SearchResult
s
- SearchResultCollection() - Constructor for class omero.gateway.model.SearchResultCollection
-
- SearchScope - Enum in omero.gateway.model
-
Defines the scope of a search, i.e. in which fields to search (name, description, etc.);
See
SearchParameters
- secondLevelCacheHit(String) - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- secondLevelCacheMiss(String) - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- secondLevelCachePut(String) - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
- security - Variable in class omero.cmd.admin.UpdateSessionTimeoutRequestI
-
- SecurityContext - Class in omero.gateway
-
Hosts information required to access correct connector.
- SecurityContext(long) - Constructor for class omero.gateway.SecurityContext
-
Creates a new instance.
- securitySystem - Variable in class ome.services.blitz.fire.SessionManagerI
-
- SendEmailRequestI - Class in omero.cmd.mail
-
Callback interface allowing to send email using JavaMailSender, supporting
MIME messages through preparation callbacks.
- SendEmailRequestI(MailUtil) - Constructor for class omero.cmd.mail.SendEmailRequestI
-
- sendErrors() - Method in class ome.formats.importer.util.ErrorHandler
-
Send existing errors in ErrorContainer array to server
- sendFiles - Variable in class ome.formats.importer.ImportConfig
-
- sendFiles - Variable in class ome.formats.importer.ImportEvent.DEBUG_SEND
-
- sendFiles - Variable in class ome.formats.importer.util.ErrorHandler
-
- sendLogFile - Variable in class ome.formats.importer.ImportConfig
-
- sendLogs - Variable in class ome.formats.importer.ImportEvent.DEBUG_SEND
-
- sendLogs - Variable in class ome.formats.importer.util.ErrorHandler
-
- sendReport - Variable in class ome.formats.importer.ImportConfig
-
- separatorChar - Static variable in class ome.services.blitz.repo.path.FsFile
-
the separator character for delimiting repository path components
- SerialThrottlingStrategy - Class in ome.services.throttling
-
Throttling implementation which only allows a single invocation to be run at
any given time.
- SerialThrottlingStrategy(OmeroContext) - Constructor for class ome.services.throttling.SerialThrottlingStrategy
-
- series - Variable in class ome.formats.importer.ImportEvent.IMPORT_STEP
-
- series - Variable in class ome.formats.importer.ImportEvent.PROGRESS_EVENT
-
- seriesCount - Variable in class ome.formats.importer.ImportEvent.IMPORT_STEP
-
- ServantHolder - Class in omero.util
-
Manager for all active servants in a single session.
- ServantHolder(String) - Constructor for class omero.util.ServantHolder
-
- ServantHolder(String, int) - Constructor for class omero.util.ServantHolder
-
- servantsPerSession - Variable in class ome.services.blitz.fire.SessionManagerI
-
- server - Variable in class loci.ome.io.OMECredentials
-
Deprecated.
- SERVER_NAME_SEPARATOR - Static variable in class ome.formats.importer.ImportConfig
-
Delimiter used to encode multiple servers in one preferences value.
- ServerFilePathTransformer - Class in ome.services.blitz.repo.path
-
Transform between repository
FsFile
path and server-local
File
.
- ServerFilePathTransformer() - Constructor for class ome.services.blitz.repo.path.ServerFilePathTransformer
-
- ServerInformation - Class in omero.gateway
-
Holds hostname and port of an OMERO server
- ServerInformation() - Constructor for class omero.gateway.ServerInformation
-
Creates an empty instance
- ServerInformation(String, int) - Constructor for class omero.gateway.ServerInformation
-
Creates a new instance
- serverPaths - Variable in class ome.services.blitz.repo.PublicRepositoryI
-
- ServerTemplateImportTarget - Class in ome.formats.importer.targets
-
- ServerTemplateImportTarget(String) - Constructor for class ome.formats.importer.targets.ServerTemplateImportTarget
-
- service - Variable in class ome.services.blitz.impl.AbstractAmdServant
-
If there is no undering ome.* service, then this value can be null.
- ServiceFactoryAware - Interface in ome.services.blitz.util
-
Servant which is aware of the
ServiceFactoryI
-instance which it
belongs to and will have it injected on instantiation.
- ServiceFactoryI - Class in ome.services.blitz.impl
-
Responsible for maintaining all servants for a single session.
- ServiceFactoryI(Current, ServantHolder, SessionControlPrx, OmeroContext, SessionManager, Executor, Principal, List<HardWiredInterceptor>, TopicManager, Registry) - Constructor for class ome.services.blitz.impl.ServiceFactoryI
-
- ServiceFactoryI(boolean, Current, ServantHolder, SessionControlPrx, OmeroContext, SessionManager, Executor, Principal, List<HardWiredInterceptor>, TopicManager, Registry, String) - Constructor for class ome.services.blitz.impl.ServiceFactoryI
-
- session - Variable in class omero.cmd.graphs.BaseGraphTraversalProcessor
-
- session - Variable in class omero.model.DetailsI
-
- session - Variable in class omero.util.RPSTileLoop
-
- SessionAware - Interface in omero.cmd
-
Servant which is aware of the
SessionI
-instance which it
belongs to and will have it injected on instantiation.
- SessionI - Class in ome.services.blitz.impl
-
Implementation of the ISession service.
- SessionI(ISession, BlitzExecutor) - Constructor for class ome.services.blitz.impl.SessionI
-
- SessionI - Class in omero.cmd
-
- SessionI(boolean, Current, ServantHolder, SessionControlPrx, OmeroContext, SessionManager, Executor, Principal, String) - Constructor for class omero.cmd.SessionI
-
- sessionId(String, String) - Static method in class omero.cmd.SessionI
-
Definition of session ids: "session-<CLIENTID>/<UUID>"
- sessionId() - Method in class omero.cmd.SessionI
-
- sessionKey - Variable in class ome.formats.importer.ImportConfig
-
- sessionManager - Variable in class ome.services.blitz.fire.SessionManagerI
-
- sessionManager - Variable in class omero.cmd.SessionI
-
- SessionManagerI - Class in ome.services.blitz.fire
-
Central login logic for all OMERO.blitz clients.
- SessionManagerI(Ring, ObjectAdapter, SecuritySystem, SessionManager, Executor, TopicManager, Registry, int) - Constructor for class ome.services.blitz.fire.SessionManagerI
-
- sessionToHolder - Variable in class ome.services.blitz.fire.SessionManagerI
-
An internal mapping to all
ServiceFactoryI
instances for a given
session since there is no method on
ObjectAdapter
to retrieve
all servants.
- set(T) - Method in class ome.formats.importer.ImportConfig.Value
-
- set(U) - Method in class ome.services.blitz.util.ResultHolder
-
- set(int, int, boolean) - Method in class omero.model.PermissionsI
-
- setAbsolutePath(String) - Method in class ome.formats.importer.util.ErrorContainer
-
set path for file
- setActive_async(AMD_RenderingEngine_setActive, int, boolean, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- setActive_async(AMD_IShare_setActive, long, boolean, Current) - Method in class ome.services.blitz.impl.ShareI
-
- setAdminPrivileges(SecurityContext, ExperimenterData, Collection<String>) - Method in class omero.gateway.facility.AdminFacility
-
Set the admin privileges of a certain user
(see omero.model.enums)
- setAdminPrivileges_async(AMD_IAdmin_setAdminPrivileges, Experimenter, List<AdminPrivilege>, Current) - Method in class ome.services.blitz.impl.AdminI
-
- setAgent(String) - Method in class omero.client
-
Sets the user agent
string for
this client.
- setAirPressure(Pressure) - Method in class omero.gateway.model.ImageAcquisitionData
-
Sets the air pressure.
- setAllowLeadingWildcard_async(AMD_Search_setAllowLeadingWildcard, boolean, Current) - Method in class ome.services.blitz.impl.SearchI
-
- setAllPixels(List<PixelsData>) - Method in class omero.gateway.model.ImageData
-
Sets the set of pixels related to this image.
- setAlpha(Integer) - Method in class omero.gateway.model.WellData
-
Sets the alpha component of the color associated to the well.
- setAnnotations(Set) - Method in class omero.gateway.model.DatasetData
-
Sets the annotations related to this dataset.
- setAnnotations(Set) - Method in class omero.gateway.model.ImageData
-
Sets the image's annotations.
- setApplicationContext(ApplicationContext) - Method in class ome.services.blitz.fire.SessionManagerI
-
- setApplicationContext(ApplicationContext) - Method in class ome.services.blitz.impl.AbstractAmdServant
-
- setApplicationContext(ApplicationContext) - Method in class ome.services.blitz.impl.commands.RequestObjectFactoryRegistry
-
- setApplicationContext(ApplicationContext) - Method in class ome.services.blitz.repo.PublicRepositoryI
-
- setApplicationContext(ApplicationContext) - Method in class ome.services.blitz.repo.RequestObjectFactoryRegistry
-
- setApplicationContext(ApplicationContext) - Method in class ome.services.blitz.util.ParamsCache
-
- setApplicationContext(ApplicationContext) - Method in class ome.services.throttling.AbstractThrottlingStrategy
-
- setApplicationContext(ApplicationContext) - Method in class omero.cmd.graphs.GraphRequestFactory
-
- setApplicationContext(ApplicationContext) - Method in class omero.cmd.RequestObjectFactoryRegistry
-
- setApplicationName(String) - Method in class omero.gateway.LoginCredentials
-
Set the application name
- setAppVersion(String) - Method in class ome.formats.importer.util.ErrorContainer
-
- setArcAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setArcID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setArcLotNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setArcManufacturer(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setArcModel(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setArcPower(Power, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setArcSerialNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setArcType(ArcType, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setArgument(Map<String, Boolean>, String) - Static method in class ome.formats.importer.cli.CommandLineImporter
-
Set a conflicting argument and return the usage if the key is already
set
- setBaseDirFile(File) - Method in class ome.services.blitz.repo.path.ServerFilePathTransformer
-
Set the repository root directory, to which
FsFile
instances are considered to be relative.
- setBatchSize_async(AMD_Search_setBatchSize, int, Current) - Method in class ome.services.blitz.impl.SearchI
-
- setBinaryFileBinData(byte[], int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setBinaryFileBinDataBigEndian(Boolean, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setBinaryFileBinDataCompression(Compression, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setBinaryFileBinDataLength(NonNegativeLong, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setBinaryFileFileName(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setBinaryFileMIMEType(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setBinaryFileSize(NonNegativeLong, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setBinaryOnlyMetadataFile(String) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setBinaryOnlyUUID(String) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setBit(byte[], int, int) - Method in class omero.gateway.model.MaskData
-
Sets the bit value in a byte array at position bit to be the value
value.
- setBlue(Integer) - Method in class omero.gateway.model.WellData
-
Sets the blue component of the color associated to the well.
- setBooleanAnnotationAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setBooleanAnnotationAnnotator(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setBooleanAnnotationDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setBooleanAnnotationID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setBooleanAnnotationNamespace(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setBooleanAnnotationValue(Boolean, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setC(int) - Method in class omero.gateway.model.ShapeData
-
Sets the channel.
- setCacheEntries(int, int) - Method in interface omero.gateway.cache.CacheService
-
Resets the number of items in memory of the cache,
when a new cache is created or deleted.
- setCallback(ClientCallbackPrx, Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- setCallback(RepoRawFileStoreI.Callback) - Method in class ome.services.blitz.repo.RepoRawFileStoreI
-
- setCallContext(Map<String, String>) - Method in class ome.services.blitz.repo.ManagedImportRequestI
-
- setCaseSentivice_async(AMD_Search_setCaseSentivice, boolean, Current) - Method in class ome.services.blitz.impl.SearchI
-
- setChannelAcquisitionMode(AcquisitionMode, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelColor(Color, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelContrastMethod(ContrastMethod, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelEmissionWavelength(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelExcitationWavelength(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelFilterSetRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelFluor(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelGlobalMinMax(int, double, double, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelGlobalMinMax_async(AMD_IPixels_setChannelGlobalMinMax, long, int, double, double, Current) - Method in class ome.services.blitz.impl.PixelsI
-
- setChannelID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelIlluminationType(IlluminationType, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelLightSourceSettingsAttenuation(PercentFraction, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelLightSourceSettingsID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelLightSourceSettingsWavelength(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelLookupTable_async(AMD_RenderingEngine_setChannelLookupTable, int, String, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- setChannelName(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelNDFilter(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelPinholeSize(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelPockelCellSetting(Integer, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelSamplesPerPixel(PositiveInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setChannelWindow_async(AMD_RenderingEngine_setChannelWindow, int, double, double, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- setCheckNetwork(boolean) - Method in class omero.gateway.LoginCredentials
-
Enable/Disable network checks
- setChecksumAlgorithm(String) - Method in class ome.formats.importer.ImportContainer
-
- setChecksumAlgorithm(ChecksumAlgorithm, List<Long>, Current) - Method in class ome.services.blitz.repo.ManagedRepositoryI
-
- setClient(OMEROMetadataStoreClient) - Method in class ome.formats.importer.util.ClientKeepAlive
-
- setClientEndpoints(String, int) - Method in class ome.services.blitz.Router
-
- setClientObject(boolean) - Method in class omero.gateway.model.ShapeData
-
Sets to true
if the object one that has been created client
side, false
otherwise.
- setClientSide(boolean) - Method in class omero.gateway.model.ROIData
-
Sets the flag indicating if the object is a client-side object or not.
- setCo2Percent(double) - Method in class omero.gateway.model.ImageAcquisitionData
-
Sets the co2 level.
- setCodomainInterval_async(AMD_RenderingEngine_setCodomainInterval, int, int, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- setComment(String) - Method in class ome.formats.importer.util.ErrorContainer
-
- setCommentAnnotationAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setCommentAnnotationAnnotator(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setCommentAnnotationDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setCommentAnnotationID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setCommentAnnotationNamespace(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setCommentAnnotationValue(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setCommentType(String) - Method in class ome.formats.importer.util.ErrorContainer
-
- setCompleted() - Method in class omero.gateway.model.TableData
-
- setCompression(float) - Method in class omero.gateway.LoginCredentials
-
Sets the compression level
- setCompression(float) - Method in class omero.gateway.SecurityContext
-
Set the compression level
- setCompressionLevel_async(AMD_RenderingEngine_setCompressionLevel, float, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- setCondition(String) - Method in class omero.cmd.graphs.BaseGraphPolicyAdjuster
-
- setConfigValue_async(AMD_IConfig_setConfigValue, String, String, Current) - Method in class ome.services.blitz.impl.ConfigI
-
- setConfigValueIfEquals_async(AMD_IConfig_setConfigValueIfEquals, String, String, String, Current) - Method in class ome.services.blitz.impl.ConfigI
-
- setContent(Object) - Method in class omero.gateway.model.AnnotationData
-
Sets the annotation value.
- setContent(Object) - Method in class omero.gateway.model.BooleanAnnotationData
-
Sets the text annotation.
- setContent(Object) - Method in class omero.gateway.model.DoubleAnnotationData
-
Sets the text annotation.
- setContent(Object) - Method in class omero.gateway.model.FileAnnotationData
-
Sets the text annotation.
- setContent(Object) - Method in class omero.gateway.model.LongAnnotationData
-
Sets the text annotation.
- setContent(Object) - Method in class omero.gateway.model.MapAnnotationData
-
- setContent(Object) - Method in class omero.gateway.model.RatingAnnotationData
-
Sets the text annotation.
- setContent(Object) - Method in class omero.gateway.model.TagAnnotationData
-
Sets the text annotation.
- setContent(Object) - Method in class omero.gateway.model.TermAnnotationData
-
Sets the text annotation.
- setContent(Object) - Method in class omero.gateway.model.TextualAnnotationData
-
Sets the text annotation.
- setContent(Object) - Method in class omero.gateway.model.TimeAnnotationData
-
Sets the time annotation.
- setContent(Object) - Method in class omero.gateway.model.XMLAnnotationData
-
Sets the annotation.
- setContrastMethod(ContrastMethod) - Method in class omero.gateway.model.ChannelData
-
Sets the contrast method value.
- setCorrectionCollar(double) - Method in class omero.gateway.model.ImageAcquisitionData
-
Sets the correction of the objective.
- setCreationEvent(Event, Current) - Method in class omero.model.DetailsI
-
- setCurrentGroup(long) - Method in class ome.formats.OMEROMetadataStoreClient
-
Changes the default group of the currently logged in user.
- setCurrentLogFile(String, String) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setCustomAnnotationList(List<Annotation>) - Method in class ome.formats.importer.ImportContainer
-
Sets the list of custom, user specified, annotations to link to all
images represented by this container.
- setCustomImageNaming(boolean) - Method in class ome.formats.importer.ImportConfig
-
- setCustomImageNaming(boolean) - Method in class ome.formats.importer.util.IniFileLoader
-
- setDataObjects(Set<DataObject>) - Method in class omero.gateway.model.TagAnnotationData
-
Sets the collection of data objects related to that tag.
- setDatasetAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDatasetDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDatasetExperimenterGroupRef(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDatasetExperimenterRef(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDatasetID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDatasetImageRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDatasetName(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDatasets(Set) - Method in class omero.gateway.model.ImageData
-
Sets the datasets containing the image.
- setDatasets(Set<DatasetData>) - Method in class omero.gateway.model.ProjectData
-
Sets the datasets contained in this project.
- setDataValue(double) - Method in class omero.gateway.model.DoubleAnnotationData
-
Sets the rating value.
- setDataValue(long) - Method in class omero.gateway.model.LongAnnotationData
-
Sets the rating value.
- setDateType(int) - Method in class omero.gateway.model.SearchParameters
-
- setDebugLevel(int) - Method in class ome.formats.importer.ImportConfig
-
- setDebugLevel(int) - Method in class ome.formats.importer.util.IniFileLoader
-
Set debug level for application
- setDefaultGroup_async(AMD_IAdmin_setDefaultGroup, Experimenter, ExperimenterGroup, Current) - Method in class ome.services.blitz.impl.AdminI
-
- setDefaultPixels(PixelsData) - Method in class omero.gateway.model.ImageData
-
Sets the default set of pixels.
- setDefaultSample(int) - Method in class omero.gateway.model.PlateData
-
Sets the default sample.
- setDefaultT_async(AMD_RenderingEngine_setDefaultT, int, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- setDefaultZ_async(AMD_RenderingEngine_setDefaultZ, int, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- setDescription(String) - Method in class omero.gateway.model.AnnotationData
-
Sets the description of the underlying Annotation
instance.
- setDescription(String) - Method in class omero.gateway.model.DatasetData
-
Sets the description of the dataset.
- setDescription(String) - Method in class omero.gateway.model.FileAnnotationData
-
Sets the description of the annotation.
- setDescription(String) - Method in class omero.gateway.model.FileData
-
Sets the description.
- setDescription(String) - Method in class omero.gateway.model.FolderData
-
Set the description of the Folder
- setDescription(String) - Method in class omero.gateway.model.GroupData
-
Sets the name of the group.
- setDescription(String) - Method in class omero.gateway.model.ImageData
-
Sets the description of the image.
- setDescription(String) - Method in class omero.gateway.model.PlateAcquisitionData
-
Sets the name of the acquisition.
- setDescription(String) - Method in class omero.gateway.model.PlateData
-
Sets the description of the plate.
- setDescription(String) - Method in class omero.gateway.model.ProjectData
-
Sets the description of the project.
- setDescription(String) - Method in class omero.gateway.model.ScreenData
-
Sets the description of the screen.
- setDescription(String) - Method in class omero.gateway.model.TableDataColumn
-
Set the description
- setDescription(String) - Method in class omero.gateway.model.XMLAnnotationData
-
Sets the description of the annotation.
- setDescription_async(AMD_IShare_setDescription, long, String, Current) - Method in class ome.services.blitz.impl.ShareI
-
- setDetach(boolean, Current) - Method in class omero.grid.InteractiveProcessorI
-
- setDetectorAmplificationGain(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorGain(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorLotNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorManufacturer(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorModel(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorOffset(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorSerialNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorSettingBinning(Binning) - Method in class omero.gateway.model.ChannelAcquisitionData
-
Sets the detector's binning.
- setDetectorSettingOffset(double) - Method in class omero.gateway.model.ChannelAcquisitionData
-
Sets the detector's setting offset.
- setDetectorSettingsBinning(Binning, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorSettingsGain(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorSettingsGain(double) - Method in class omero.gateway.model.ChannelAcquisitionData
-
Sets the detector setting's gain.
- setDetectorSettingsID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorSettingsIntegration(PositiveInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorSettingsOffset(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorSettingsReadOutRate(Frequency, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorSettingsReadOutRate(Frequency) - Method in class omero.gateway.model.ChannelAcquisitionData
-
Sets the detector setting's read out rate.
- setDetectorSettingsVoltage(ElectricPotential, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorSettingsVoltage(ElectricPotential) - Method in class omero.gateway.model.ChannelAcquisitionData
-
Sets the detector setting's voltage.
- setDetectorSettingsZoom(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorType(DetectorType, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorVoltage(ElectricPotential, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDetectorZoom(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDichroicAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDichroicID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDichroicLotNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDichroicManufacturer(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDichroicModel(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDichroicSerialNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDirty(boolean) - Method in class omero.gateway.model.DataObject
-
Sets to true
if the value has been modified,
otherwise.
- setDirty(boolean) - Method in class omero.gateway.model.ShapeData
-
Sets to true
if the figure been changed from the server
side version, false
otherwise.
- setDN_async(AMD_ILdap_setDN, RLong, String, Current) - Method in class ome.services.blitz.impl.LdapI
-
- setDoThumbnails(boolean) - Method in class ome.formats.importer.ImportContainer
-
Sets whether or not we are performing thumbnail creation upon import
completion.
- setDoubleAnnotationAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDoubleAnnotationAnnotator(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDoubleAnnotationDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDoubleAnnotationID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDoubleAnnotationNamespace(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setDoubleAnnotationValue(Double, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseFillColor(Color, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseFillRule(FillRule, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseFontFamily(FontFamily, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseFontSize(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseFontStyle(FontStyle, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseLocked(Boolean, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseRadiusX(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseRadiusY(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseStrokeColor(Color, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseStrokeDashArray(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseStrokeWidth(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseText(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseTheC(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseTheT(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseTheZ(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseTransform(AffineTransform, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseX(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEllipseY(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEmail(String) - Method in class ome.formats.importer.util.ErrorContainer
-
- setEmail(String) - Method in class omero.gateway.model.ExperimenterData
-
Sets the e-mail of the experimenter.
- setEmissionWavelength(Length) - Method in class omero.gateway.model.ChannelData
-
Sets the emission wavelength.
- setEncrypted(boolean) - Method in class loci.ome.io.OmeroReader
-
Deprecated.
- setEncryptedConnection(boolean) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setEncryption(boolean) - Method in class omero.gateway.LoginCredentials
-
Enable/Disable encryption
- setEnumerationProvider(EnumerationProvider) - Method in class ome.formats.OMEROMetadataStoreClient
-
Sets the active enumeration provider.
- setError(Throwable) - Method in class ome.formats.importer.util.ErrorContainer
-
- setError(int) - Method in class omero.gateway.model.SearchResultCollection
-
Set the error state
- setExcitationWavelength(Length) - Method in class omero.gateway.model.ChannelData
-
Sets the excitation wavelength.
- setExperimentDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setExperimenter(ExperimenterData) - Method in class omero.gateway.SecurityContext
-
Sets the experimenter
- setExperimenterAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setExperimenterEmail(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setExperimenterFirstName(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setExperimenterGroupAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setExperimenterGroupDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setExperimenterGroupExperimenterRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setExperimenterGroupID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setExperimenterGroupLeader(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setExperimenterGroupName(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setExperimenterID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setExperimenterInstitution(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setExperimenterLastName(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setExperimenterMiddleName(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setExperimenters(Set<ExperimenterData>) - Method in class omero.gateway.model.GroupData
-
Sets the experimenters contained in this group.
- setExperimenterUserName(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setExperimentExperimenterRef(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setExperimentID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setExperimentType(ExperimentType, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setExpiration_async(AMD_IShare_setExpiration, long, RTime, Current) - Method in class ome.services.blitz.impl.ShareI
-
- setExternalDescription(String) - Method in class omero.gateway.model.WellData
-
Sets the external description of the well.
- setExternalIdentifier(String) - Method in class omero.gateway.model.PlateData
-
Sets the external identifier.
- setExternalInfo(ExternalInfo, Current) - Method in class omero.model.DetailsI
-
- setExtra(String) - Method in class ome.formats.importer.util.ErrorContainer
-
- setFastShutdown(boolean) - Method in class omero.client
-
Sets the fastShutdown
flag.
- setFilamentAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilamentID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilamentLotNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilamentManufacturer(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilamentModel(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilamentPower(Power, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilamentSerialNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilamentType(FilamentType, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFile(File) - Method in class ome.formats.OMEROImportFixture
-
Deprecated.
- setFileAnnotationAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFileAnnotationAnnotator(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFileAnnotationDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFileAnnotationID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFileAnnotationNamespace(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFileId_async(AMD_RawFileStore_setFileId, long, Current) - Method in class ome.services.blitz.impl.RawFileStoreI
-
- setFileId_async(AMD_RawFileStore_setFileId, long, Current) - Method in class ome.services.blitz.repo.RepoRawFileStoreI
-
- setFiles(String[]) - Method in class ome.formats.importer.util.ErrorContainer
-
- setFileType(String) - Method in class ome.formats.importer.util.ErrorContainer
-
- setFill(Color) - Method in class omero.gateway.model.ShapeSettingsData
-
Set the fill color.
- setFillRule(String) - Method in class omero.gateway.model.ShapeSettingsData
-
Set the fill rule.
- setFilterAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilterFilterWheel(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilterID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilterLotNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilterManufacturer(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilterModel(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilterSerialNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilterSetDichroicRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilterSetEmissionFilterRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilterSetExcitationFilterRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilterSetID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilterSetLotNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilterSetManufacturer(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilterSetModel(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilterSetSerialNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFilterType(FilterType, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFirstName(String) - Method in class omero.gateway.model.ExperimenterData
-
Sets the first name of the experimenter.
- setFluor(String) - Method in class omero.gateway.model.ChannelData
-
Sets the fluor.
- setFolder(Folder) - Method in class omero.gateway.model.FolderData
-
Set the Folder
- setFolderAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFolderDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFolderFolderRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFolderID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFolderImageRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFolderName(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFolderROIRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setFolders(Collection<FolderData>) - Method in class omero.gateway.model.ROIResult
-
Sets the available folders
- setFontFamily(String) - Method in class omero.gateway.model.ShapeSettingsData
-
Returns the stroke.
- setFontSize(Length) - Method in class omero.gateway.model.ShapeSettingsData
-
Set the size of the font.
- setFontStyle(String) - Method in class omero.gateway.model.ShapeSettingsData
-
Sets the style of the font.
- setGenericExcitationSourceAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setGenericExcitationSourceID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setGenericExcitationSourceLotNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setGenericExcitationSourceManufacturer(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setGenericExcitationSourceMap(List<MapPair>, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setGenericExcitationSourceModel(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setGenericExcitationSourcePower(Power, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setGenericExcitationSourceSerialNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setGreen(Integer) - Method in class omero.gateway.model.WellData
-
Sets the green component of the color associated to the well.
- setGroup(Long) - Method in class ome.formats.OMEROMetadataStoreClient
-
Sets the id which will be used
to set the call context for all services.
- setGroup(ExperimenterGroup, Current) - Method in class omero.model.DetailsI
-
- setGroupAnnotate(boolean) - Method in class omero.gateway.model.PermissionData
-
Sets to true
if the group has annotate access,
false
otherwise.
- setGroupAnnotate(boolean, Current) - Method in class omero.model.PermissionsI
-
- setGroupID(Long) - Method in class loci.ome.io.OmeroReader
-
Deprecated.
- setGroupID(long) - Method in class omero.gateway.LoginCredentials
-
Sets the groupID to use for the connection
- setGroupId(long) - Method in class omero.gateway.model.SearchParameters
-
- setGroupId(long) - Method in class omero.gateway.model.SearchResult
-
Set the group id of the object
- setGroupName(String) - Method in class loci.ome.io.OmeroReader
-
Deprecated.
- setGroupOwner_async(AMD_IAdmin_setGroupOwner, ExperimenterGroup, Experimenter, Current) - Method in class ome.services.blitz.impl.AdminI
-
- setGroupRead(boolean) - Method in class omero.gateway.model.PermissionData
-
Sets to true
if the group has read access,
false
otherwise.
- setGroupRead(boolean, Current) - Method in class omero.model.PermissionsI
-
- setGroups(List<GroupData>) - Method in class omero.gateway.model.ExperimenterData
-
Sets the groups the experimenter is a member of.
- setGroupWrite(boolean) - Method in class omero.gateway.model.PermissionData
-
Sets to true
if the group has write access,
false
otherwise.
- setGroupWrite(boolean, Current) - Method in class omero.model.PermissionsI
-
- setHeight(double) - Method in class omero.gateway.model.MaskData
-
Sets the height of an untransformed mask.
- setHeight(double) - Method in class omero.gateway.model.RectangleData
-
Sets the height of an untransformed rectangle.
- setHolder(ServantHolder) - Method in class ome.services.blitz.impl.AbstractAmdServant
-
- setHostname(String) - Method in class omero.gateway.ServerInformation
-
Set the hostname
- setHumidity(double) - Method in class omero.gateway.model.ImageAcquisitionData
-
Sets the humidity.
- setIceCommunicator(Communicator) - Method in class omero.util.ObjectFactoryRegistry
-
- setId(Long) - Method in class ome.services.blitz.repo.CheckedPath
-
- setId(long) - Method in class omero.gateway.model.DataObject
-
Sets the database id.
- setIdMatch(boolean) - Method in class omero.gateway.model.SearchResult
-
Set to true
if this result is an ID match.
- setIllumination(Illumination) - Method in class omero.gateway.model.ChannelData
-
Sets the illumination value.
- setImage(ImageData) - Method in class omero.gateway.model.PixelsData
-
Sets the image linked to this pixels' set.
- setImage(Image) - Method in class omero.gateway.model.ROIData
-
Sets the image for the ROI.
- setImage(ImageData) - Method in class omero.gateway.model.WellSampleData
-
Sets the image linked to this well sample.
- setImageAcquisitionDate(Timestamp, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setImageAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setImageDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setImageExperimenterGroupRef(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setImageExperimenterRef(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setImageExperimentRef(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setImageID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setImageInstrumentRef(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setImageMicrobeamManipulationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setImageName(String, int) - Method in class ome.formats.ImageNameMetadataStore
-
- setImageName(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setImageROIRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setImageROIRef(String, int, int) - Method in class ome.formats.OverlayMetadataStore
-
- setImages(Set<ImageData>) - Method in class omero.gateway.model.DatasetData
-
Sets the images contained in this dataset.
- setImagingEnvironmentAirPressure(Pressure, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setImagingEnvironmentCO2Percent(PercentFraction, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setImagingEnvironmentHumidity(PercentFraction, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setImagingEnvironmentMap(List<MapPair>, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setImagingEnvironmentTemperature(Temperature, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setImportOutput(ImportOutput) - Method in class ome.formats.importer.cli.CommandLineImporter
-
Set the current ImportOutput
(defaulting to null if
a null value is passed).
- setImportOutput(ImportOutput) - Method in class ome.formats.importer.cli.LoggingImportMonitor
-
Set the current ImportOutput
(defaulting to null if
a null value is passed).
- setIndex(int) - Method in class ome.formats.importer.util.ErrorContainer
-
Set index
- setIndex(int) - Method in exception omero.gateway.exception.RenderingServiceException
-
Sets the index indicating if the error occurred due to a network
failure.
- setIndex(int) - Method in class omero.gateway.model.TableDataColumn
-
Set the index
- setIndexes(Map<Integer, Integer>) - Method in class omero.gateway.model.TableResult
-
Sets the indexes.
- setInput(String, RType) - Method in class omero.client
-
Sets an item in the "input" shared (session) memory under the given name.
- setInput_async(AMD_ISession_setInput, String, String, RType, Current) - Method in class ome.services.blitz.impl.SessionI
-
- setInstanceProvider(InstanceProvider) - Method in class ome.formats.OMEROMetadataStoreClient
-
Sets the active instance provider.
- setInstitution(String) - Method in class omero.gateway.model.ExperimenterData
-
Sets the institution where the experimenter works.
- setInstrumentAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setInstrumentID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setIP(String) - Method in class omero.client
-
Sets the user ip
string for
this client.
- setIsSPW(Boolean) - Method in class ome.formats.importer.ImportContainer
-
Set true if the import container is filled in with a Screen/Plate/Well
image structure.
- setJavaClasspath(String) - Method in class ome.formats.importer.util.ErrorContainer
-
- setJavaVersion(String) - Method in class ome.formats.importer.util.ErrorContainer
-
- setLabelAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLabelFillColor(Color, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLabelFillRule(FillRule, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLabelFontFamily(FontFamily, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLabelFontSize(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLabelFontStyle(FontStyle, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLabelID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLabelLocked(Boolean, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLabelName(String) - Method in class omero.gateway.model.ImageAcquisitionData
-
Sets the name of the stage label.
- setLabelStrokeColor(Color, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLabelStrokeDashArray(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLabelStrokeWidth(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLabelText(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLabelTheC(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLabelTheT(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLabelTheZ(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLabelTransform(AffineTransform, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLabelX(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLabelY(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLaserAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLaserFrequencyMultiplication(PositiveInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLaserID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLaserLaserMedium(LaserMedium, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLaserLotNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLaserManufacturer(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLaserModel(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLaserPockelCell(Boolean, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLaserPower(Power, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLaserPulse(Pulse, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLaserPump(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLaserRepetitionRate(Frequency, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLaserSerialNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLaserTuneable(Boolean, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLaserType(LaserType, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLaserWavelength(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLastName(String) - Method in class omero.gateway.model.ExperimenterData
-
Sets the last name of the experimenter.
- setLightEmittingDiodeAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLightEmittingDiodeID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLightEmittingDiodeLotNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLightEmittingDiodeManufacturer(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLightEmittingDiodeModel(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLightEmittingDiodePower(Power, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLightEmittingDiodeSerialNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLightPathAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLightPathDichroicRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLightPathEmissionFilterRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLightPathExcitationFilterRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLightSettingsAttenuation(double) - Method in class omero.gateway.model.ChannelAcquisitionData
-
Sets the attenuation of the light settings.
- setLightSettingsWavelength(Length) - Method in class omero.gateway.model.ChannelAcquisitionData
-
Sets the wavelength of the light source.
- setLightSource(LightSourceData) - Method in class omero.gateway.model.ChannelAcquisitionData
-
Sets the light source associated to the settings.
- setLineAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineFillColor(Color, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineFillRule(FillRule, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineFontFamily(FontFamily, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineFontSize(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineFontStyle(FontStyle, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineLocked(Boolean, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineMarkerEnd(Marker, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineMarkerStart(Marker, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineStrokeColor(Color, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineStrokeDashArray(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineStrokeWidth(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineText(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineTheC(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineTheT(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineTheZ(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineTransform(AffineTransform, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineX1(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineX2(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineY1(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLineY2(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setListAnnotationAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setListAnnotationAnnotator(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setListAnnotationDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setListAnnotationID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setListAnnotationNamespace(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLongAnnotationAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLongAnnotationAnnotator(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLongAnnotationDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLongAnnotationID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLongAnnotationNamespace(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setLongAnnotationValue(Long, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMapAnnotationAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMapAnnotationAnnotator(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMapAnnotationDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMapAnnotationID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMapAnnotationNamespace(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMapAnnotationValue(List<MapPair>, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMarkerEnd(String) - Method in class omero.gateway.model.ShapeSettingsData
-
Sets the marker end.
- setMarkerStart(String) - Method in class omero.gateway.model.ShapeSettingsData
-
Sets the marker start.
- setMask(byte[]) - Method in class omero.gateway.model.MaskData
-
Sets the mask image.
- setMask(BufferedImage) - Method in class omero.gateway.model.MaskData
-
Sets the mask from the bufferedImage.
- setMaskAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskBinData(byte[], int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskBinData(byte[], int, int) - Method in class ome.formats.OverlayMetadataStore
-
- setMaskBinDataBigEndian(Boolean, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskBinDataCompression(Compression, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskBinDataLength(NonNegativeLong, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskFillColor(Color, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskFillRule(FillRule, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskFontFamily(FontFamily, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskFontSize(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskFontStyle(FontStyle, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskHeight(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskHeight(Double, int, int) - Method in class ome.formats.OverlayMetadataStore
-
- setMaskID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskLocked(Boolean, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskStrokeColor(Color, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskStrokeColor(Color, int, int) - Method in class ome.formats.OverlayMetadataStore
-
- setMaskStrokeDashArray(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskStrokeWidth(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskText(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskTheC(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskTheT(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskTheZ(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskTransform(AffineTransform, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskWidth(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskWidth(Double, int, int) - Method in class ome.formats.OverlayMetadataStore
-
- setMaskX(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskX(Double, int, int) - Method in class ome.formats.OverlayMetadataStore
-
- setMaskY(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMaskY(Double, int, int) - Method in class ome.formats.OverlayMetadataStore
-
- setMedium(Medium) - Method in class omero.gateway.model.ImageAcquisitionData
-
Sets the medium of the objective.
- setMergedBatches_async(AMD_Search_setMergedBatches, boolean, Current) - Method in class ome.services.blitz.impl.SearchI
-
- setMessage(String, Current) - Method in class ome.services.blitz.impl.ScriptProcessI
-
- setMessage_async(AMD_JobHandle_setMessage, String, Current) - Method in class ome.services.blitz.impl.JobHandleI
-
- setMetadataOptions(MetadataOptions) - Method in class ome.formats.importer.OMEROWrapper
-
- setMicrobeamManipulationDescription(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMicrobeamManipulationExperimenterRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMicrobeamManipulationID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMicrobeamManipulationLightSourceSettingsAttenuation(PercentFraction, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMicrobeamManipulationLightSourceSettingsID(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMicrobeamManipulationLightSourceSettingsWavelength(Length, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMicrobeamManipulationROIRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMicrobeamManipulationType(MicrobeamManipulationType, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMicroscopeLotNumber(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMicroscopeManufacturer(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMicroscopeModel(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMicroscopeSerialNumber(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMicroscopeType(MicroscopeType, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setMiddleName(String) - Method in class omero.gateway.model.ExperimenterData
-
Sets the middle name of the experimenter.
- setMode(AcquisitionMode) - Method in class omero.gateway.model.ChannelData
-
Sets the acquisition mode value.
- setModel_async(AMD_RenderingEngine_setModel, RenderingModel, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- setModelProcessors(List<ModelProcessor>) - Method in class ome.formats.OMEROMetadataStoreClient
-
Sets the current set of model processors.
- setName(String) - Method in class ome.formats.OMEROImportFixture
-
Deprecated.
- setName(String) - Method in class omero.gateway.model.ChannelData
-
Sets the name of the logical channel.
- setName(String) - Method in class omero.gateway.model.DatasetData
-
Sets the name of the dataset.
- setName(String) - Method in class omero.gateway.model.FolderData
-
Set the name of the Folder
- setName(String) - Method in class omero.gateway.model.GroupData
-
Sets the name of the group.
- setName(String) - Method in class omero.gateway.model.ImageData
-
Sets the name of the image.
- setName(String) - Method in class omero.gateway.model.PlateAcquisitionData
-
Sets the name of the acquisition.
- setName(String) - Method in class omero.gateway.model.PlateData
-
Sets the name of the plate.
- setName(String) - Method in class omero.gateway.model.ProjectData
-
Sets the name of the project.
- setName(String) - Method in class omero.gateway.model.ScreenData
-
Sets the name of the screen.
- setName(String) - Method in class omero.gateway.model.TableDataColumn
-
Set the header
- setNameSpace(String) - Method in class omero.gateway.model.AnnotationData
-
Sets the name space of the underlying Annotation
instance.
- setNDFilter(double) - Method in class omero.gateway.model.ChannelData
-
Sets the ND filter.
- setNoStatsInfo(boolean) - Method in class ome.formats.importer.ImportContainer
-
Sets whether or not we disabling StatsInfo
population.
- setNumberOfRows(long) - Method in class omero.gateway.model.TableData
-
Set the total number of rows in the original table
- setNumOfDirectories(int) - Method in class ome.formats.importer.ImportConfig
-
- setNumOfDirectories(int) - Method in class ome.formats.importer.util.IniFileLoader
-
- setObject(DataObject) - Method in class omero.gateway.model.SearchResult
-
Set the found object
- setObjectId(long) - Method in class omero.gateway.model.SearchResult
-
Set the Id of the found object
- setObjectiveAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setObjectiveCalibratedMagnification(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setObjectiveCorrection(Correction, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setObjectiveID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setObjectiveImmersion(Immersion, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setObjectiveIris(Boolean, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setObjectiveLensNA(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setObjectiveLotNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setObjectiveManufacturer(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setObjectiveModel(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setObjectiveNominalMagnification(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setObjectiveSerialNumber(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setObjectiveSettingsCorrectionCollar(Double, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setObjectiveSettingsID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setObjectiveSettingsMedium(Medium, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setObjectiveSettingsRefractiveIndex(Double, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setObjectiveWorkingDistance(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setOffset(int, long) - Method in class ome.services.blitz.repo.ManagedImportProcessI
-
- setOffset(long) - Method in class omero.gateway.model.TableData
-
Set the row offset (if this
TableData
represents only a subset of
the original table)
- setOriginalFileId(long) - Method in class omero.gateway.model.TableData
-
Set the originalfile id
- setOriginalSettingsForPixels_async(AMD_IRenderingSettings_setOriginalSettingsForPixels, long, Current) - Method in class ome.services.blitz.impl.RenderingSettingsI
-
- setOriginalSettingsInDataset_async(AMD_IRenderingSettings_setOriginalSettingsInDataset, long, Current) - Method in class ome.services.blitz.impl.RenderingSettingsI
-
- setOriginalSettingsInImage_async(AMD_IRenderingSettings_setOriginalSettingsInImage, long, Current) - Method in class ome.services.blitz.impl.RenderingSettingsI
-
- setOriginalSettingsInSet_async(AMD_IRenderingSettings_setOriginalSettingsInSet, String, List<Long>, Current) - Method in class ome.services.blitz.impl.RenderingSettingsI
-
- setOSArch(String) - Method in class ome.formats.importer.util.ErrorContainer
-
- setOSName(String) - Method in class ome.formats.importer.util.ErrorContainer
-
- setOSVersion(String) - Method in class ome.formats.importer.util.ErrorContainer
-
- setOutput(String, RType) - Method in class omero.client
-
Sets an item in the "output" shared (session) memory under the given
name.
- setOutput_async(AMD_ISession_setOutput, String, String, RType, Current) - Method in class ome.services.blitz.impl.SessionI
-
- setOverlays_async(AMD_RenderingEngine_setOverlays, RLong, RLong, Map<Long, Integer>, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- setOwner(Experimenter, Current) - Method in class omero.model.DetailsI
-
- setParentFilePath(String, int) - Method in class omero.gateway.model.ImageData
-
Sets the path to the file hosting the image.
- setParentFolder(Folder) - Method in class omero.gateway.model.FolderData
-
Set the the parent folder
- setPassword(String) - Method in class loci.ome.io.OmeroReader
-
Deprecated.
- setPassword(String) - Method in class omero.gateway.UserCredentials
-
Sets the password
- setPathSanitizer(Function<String, String>) - Method in class ome.services.blitz.repo.path.ServerFilePathTransformer
-
Set the string transformer that is used to make file-path components safe across platforms.
- setPathToFile(String) - Method in class omero.gateway.model.ImageData
-
Sets the path to the file.
- setPerm1(long, Current) - Method in class omero.model.PermissionsI
-
- setPerm1(Long) - Method in class omero.model.PermissionsI
-
- setPermissions(Permissions, Current) - Method in class omero.model.DetailsI
-
- setPermissionsVerifier(String, int) - Method in class ome.services.blitz.Router
-
- setPinholeSize(Length) - Method in class omero.gateway.model.ChannelData
-
Sets the pinhole size.
- setPixels(Pixels) - Method in class omero.util.RPSTileLoop
-
- setPixelsBigEndian(Boolean, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPixelsBinData(byte[], int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPixelsBinDataBigEndian(Boolean, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPixelsBinDataCompression(Compression, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPixelsBinDataLength(NonNegativeLong, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPixelsDimensionOrder(DimensionOrder, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPixelsFile(long, String, String) - Method in class ome.formats.OMEROMetadataStoreClient
-
Sets the path, name and repo in the pixels table.
- setPixelsFile_async(AMD_MetadataStore_setPixelsFile, long, String, String, Current) - Method in class ome.services.blitz.impl.MetadataStoreI
-
- setPixelsID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPixelsId_async(AMD_RawPixelsStore_setPixelsId, long, boolean, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- setPixelsId_async(AMD_ThumbnailStore_setPixelsId, long, Current) - Method in class ome.services.blitz.impl.ThumbnailStoreI
-
- setPixelsId_async(AMD_RawPixelsStore_setPixelsId, long, boolean, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- setPixelsInterleaved(Boolean, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPixelSizeX(Length) - Method in class omero.gateway.model.PixelsData
-
Sets the dimension of a pixel along the X-axis
- setPixelSizeY(Length) - Method in class omero.gateway.model.PixelsData
-
Sets the dimension of a pixel along the Y-axis.
- setPixelSizeZ(Length) - Method in class omero.gateway.model.PixelsData
-
Sets the dimension of a pixel along the Z-axis
- setPixelsPhysicalSizeX(Length, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPixelsPhysicalSizeY(Length, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPixelsPhysicalSizeZ(Length, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPixelsService(PixelsService) - Method in class omero.cmd.graphs.DiskUsage2I
-
- setPixelsSignificantBits(PositiveInteger, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPixelsSizeC(PositiveInteger, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPixelsSizeT(PositiveInteger, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPixelsSizeX(PositiveInteger, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPixelsSizeY(PositiveInteger, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPixelsSizeZ(PositiveInteger, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPixelsTimeIncrement(Time, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPixelsType(PixelType, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlane(Long, byte[], int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
Writes a plane to the server.
- setPlane_async(AMD_RawPixelsStore_setPlane, byte[], int, int, int, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- setPlane_async(AMD_RawPixelsStore_setPlane, byte[], int, int, int, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- setPlaneAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlaneDeltaT(Time, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlaneExposureTime(Time, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlaneHashSHA1(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlanePositionX(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlanePositionY(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlanePositionZ(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlaneTheC(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlaneTheT(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlaneTheZ(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateAcquisition(Set<PlateAcquisitionData>) - Method in class omero.gateway.model.PlateData
-
Sets the plate acquisition linked to the plate.
- setPlateAcquisitionAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateAcquisitionDescription(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateAcquisitionEndTime(Timestamp, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateAcquisitionID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateAcquisitionMaximumFieldCount(PositiveInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateAcquisitionName(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateAcquisitionStartTime(Timestamp, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateAcquisitionWellSampleRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateColumnNamingConvention(NamingConvention, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateColumns(PositiveInteger, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateExternalIdentifier(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateFieldIndex(NonNegativeInteger, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateName(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateRowNamingConvention(NamingConvention, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateRows(PositiveInteger, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlates(Set<PlateData>) - Method in class omero.gateway.model.ScreenData
-
Sets the plates contained in this screen.
- setPlateStatus(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateWellOriginX(Length, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPlateWellOriginY(Length, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPockelCell(int) - Method in class omero.gateway.model.ChannelData
-
Sets the pockel cell.
- setPointAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPointFillColor(Color, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPointFillRule(FillRule, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPointFontFamily(FontFamily, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPointFontSize(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPointFontStyle(FontStyle, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPointID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPointLocked(Boolean, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPoints(List<Point2D.Double>) - Method in class omero.gateway.model.PolygonData
-
Sets the points in the polygon.
- setPoints(List<Point2D.Double>) - Method in class omero.gateway.model.PolylineData
-
Sets the points in the polyline.
- setPointStrokeColor(Color, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPointStrokeDashArray(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPointStrokeWidth(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPointText(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPointTheC(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPointTheT(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPointTheZ(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPointTransform(AffineTransform, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPointX(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPointY(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolygonAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolygonFillColor(Color, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolygonFillRule(FillRule, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolygonFontFamily(FontFamily, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolygonFontSize(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolygonFontStyle(FontStyle, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolygonID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolygonLocked(Boolean, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolygonPoints(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolygonStrokeColor(Color, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolygonStrokeDashArray(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolygonStrokeWidth(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolygonText(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolygonTheC(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolygonTheT(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolygonTheZ(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolygonTransform(AffineTransform, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylineAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylineFillColor(Color, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylineFillRule(FillRule, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylineFontFamily(FontFamily, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylineFontSize(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylineFontStyle(FontStyle, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylineID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylineLocked(Boolean, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylineMarkerEnd(Marker, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylineMarkerStart(Marker, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylinePoints(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylineStrokeColor(Color, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylineStrokeDashArray(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylineStrokeWidth(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylineText(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylineTheC(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylineTheT(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylineTheZ(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPolylineTransform(AffineTransform, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setPort(int) - Method in class loci.ome.io.OmeroReader
-
Deprecated.
- setPort(int) - Method in class omero.gateway.ServerInformation
-
Set the port
- setPositionX(Length) - Method in class omero.gateway.model.ImageAcquisitionData
-
Sets the x-position.
- setPositionY(Length) - Method in class omero.gateway.model.ImageAcquisitionData
-
Sets the y-position.
- setPositionZ(Length) - Method in class omero.gateway.model.ImageAcquisitionData
-
Sets the z-position.
- setProjectAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setProjectDatasetRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setProjectDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setProjectExperimenterGroupRef(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setProjectExperimenterRef(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setProjectID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setProjectName(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setProjects(Set<ProjectData>) - Method in class omero.gateway.model.DatasetData
-
Sets the projects containing the dataset.
- setProtocolDescription(String) - Method in class omero.gateway.model.ScreenData
-
Sets the description of the protocol.
- setProtocolIdentifier(String) - Method in class omero.gateway.model.ScreenData
-
Sets the identifier of the protocol.
- setQuantizationMap_async(AMD_RenderingEngine_setQuantizationMap, int, Family, double, boolean, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- setQuantumStrategy_async(AMD_RenderingEngine_setQuantumStrategy, int, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- setRadiusX(double) - Method in class omero.gateway.model.EllipseData
-
Sets the radius along the X-axis.
- setRadiusY(double) - Method in class omero.gateway.model.EllipseData
-
Sets the radius along the Y-axis.
- setRating(int) - Method in class omero.gateway.model.RatingAnnotationData
-
Sets the rating value.
- setReader(String) - Method in class ome.formats.importer.ImportContainer
-
Sets the reader class name used for reading the contents of this
import container.
- setReader(IFormatReader) - Method in interface ome.formats.model.IObjectContainerStore
-
Sets the Bio-Formats reader that will be used to populate the container
store.
- setReader(IFormatReader) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setReaderType(String) - Method in class ome.formats.importer.util.ErrorContainer
-
set file format for import
- setReadOnly() - Method in class ome.services.blitz.repo.CheckedPath
-
Mark the underlying File
as read-only and return true
if the operation was successful.
- setReadOnly(boolean) - Method in class omero.gateway.model.ShapeData
-
Sets to true
if the object is a read-only object,
false
otherwise.
- setReagentAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setReagentDescription(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setReagentID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setReagentName(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setReagentReagentIdentifier(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setReagentSetDescripion(String) - Method in class omero.gateway.model.ScreenData
-
Sets the identifier of the reagent.
- setReagentSetIdentifier(String) - Method in class omero.gateway.model.ScreenData
-
Sets the identifier of the reagent.
- setRectangleAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleFillColor(Color, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleFillRule(FillRule, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleFontFamily(FontFamily, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleFontSize(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleFontStyle(FontStyle, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleHeight(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleLocked(Boolean, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleStrokeColor(Color, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleStrokeDashArray(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleStrokeWidth(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleText(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleTheC(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleTheT(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleTheZ(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleTransform(AffineTransform, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleWidth(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleX(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRectangleY(Double, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRed(Integer) - Method in class omero.gateway.model.WellData
-
Sets the red component of the color associated to the well.
- setReference(OriginalFile) - Method in class omero.gateway.model.ImageData
-
Sets the reference to the file to register.
- setReferenceStringCache(Map<String, String[]>) - Method in interface ome.formats.model.IObjectContainerStore
-
Sets the string based reference cache for this container store.
- setReferenceStringCache(Map<String, String[]>) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRefPlateId(long) - Method in class omero.gateway.model.PlateAcquisitionData
-
Sets the id of the plate this plate acquisition is for.
- setRefractiveIndex(double) - Method in class omero.gateway.model.ImageAcquisitionData
-
Sets the refractive index of the objective.
- setRegion_async(AMD_RawPixelsStore_setRegion, int, long, byte[], Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- setRegion_async(AMD_RawPixelsStore_setRegion, int, long, byte[], Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- setRegisteredFile(OriginalFile) - Method in class omero.gateway.model.FileData
-
Sets the registered file.
- setRegisteredFile(Image) - Method in class omero.gateway.model.ImageData
-
Sets the registered file.
- setRegistry(Registry) - Method in class ome.services.blitz.fire.Ring
-
- setRenderingDefId_async(AMD_ThumbnailStore_setRenderingDefId, long, Current) - Method in class ome.services.blitz.impl.ThumbnailStoreI
-
- setRepositoryPath(String) - Method in class omero.gateway.model.FileData
-
Sets the path to the parent.
- setResolutionLevel_async(AMD_PyramidService_setResolutionLevel, int, Current) - Method in class ome.services.blitz.impl.AbstractPyramidServant
-
- setResolutionLevel_async(AMD_PyramidService_setResolutionLevel, int, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- setResources(Resources) - Method in class ome.services.blitz.repo.ManagedImportRequestI
-
Late injection to not break the constructor
- setResponseIfNull(Response) - Method in class omero.cmd.Helper
-
Set the response if there is not currently run, in which case true
is returned.
- setResult(Object) - Method in class omero.gateway.model.ROIResult
-
Sets the results.
- setReturnUnloaded_async(AMD_Search_setReturnUnloaded, boolean, Current) - Method in class ome.services.blitz.impl.SearchI
-
- setRGBA_async(AMD_RenderingEngine_setRGBA, int, int, int, int, int, Current) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- setRightsRightsHeld(String) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRightsRightsHolder(String) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setROIAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setROICoordinate(ROICoordinate) - Method in class omero.gateway.model.ShapeData
-
Sets the ROICoordinate for the ShapeData.
- setROIDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setROIID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setROIID(String, int) - Method in class ome.formats.OverlayMetadataStore
-
- setROIName(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRoot(MetadataRoot) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setRow_async(AMD_RawPixelsStore_setRow, byte[], int, int, int, int, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- setRow_async(AMD_RawPixelsStore_setRow, byte[], int, int, int, int, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- setScopeId(int) - Method in class omero.gateway.model.SearchResult
-
Set the id of the search scope, e.g. name, description, ...
- setScreenAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setScreenDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setScreenID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setScreenName(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setScreenPlateRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setScreenProtocolDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setScreenProtocolIdentifier(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setScreenReagentSetDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setScreenReagentSetIdentifier(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setScreens(Set<ScreenData>) - Method in class omero.gateway.model.PlateData
-
Sets the screens containing the plate.
- setScreenType(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setSecurityContext(IObject, Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- setSecurityPassword(String, Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- setSecuritySystem(SecuritySystem) - Method in class ome.services.blitz.impl.TimelineI
-
- setSelectedFile(File) - Method in class ome.formats.importer.util.ErrorContainer
-
- setServer(String) - Method in class loci.ome.io.OmeroReader
-
Deprecated.
- setServerEndpoints(String, int) - Method in class ome.services.blitz.Router
-
- setServerInformation(ServerInformation) - Method in class omero.gateway.SecurityContext
-
- setServiceFactory(ServiceFactoryI) - Method in class ome.services.blitz.impl.ExporterI
-
- setServiceFactory(ServiceFactoryI) - Method in class ome.services.blitz.impl.MetadataStoreI
-
- setServiceFactory(ServiceFactoryI) - Method in class ome.services.blitz.impl.RawFileStoreI
-
- setServiceFactory(ServiceFactoryI) - Method in class ome.services.blitz.impl.RenderingEngineI
-
- setServiceFactory(ServiceFactoryI) - Method in class ome.services.blitz.impl.RoiI
-
- setServiceFactory(ServiceFactoryI) - Method in class ome.services.blitz.impl.ScriptI
-
- setServiceFactory(ServiceFactoryI) - Method in class ome.services.blitz.impl.SharedResourcesI
-
- setServiceFactory(ServiceFactoryI) - Method in class ome.services.blitz.impl.TimelineI
-
- setServiceFactory(ServiceFactoryI) - Method in class ome.services.blitz.repo.ManagedImportProcessI
-
- setServiceFactory(Identity, ServiceFactoryI) - Method in class ome.services.blitz.util.FindServiceFactoryMessage
-
Store the information.
- setServiceFactory(Identity, ServiceFactoryI) - Method in class ome.services.blitz.util.RegisterServantMessage
-
- setServiceFactory(ServiceFactoryI) - Method in interface ome.services.blitz.util.ServiceFactoryAware
-
- setSession(SessionI) - Method in class omero.cmd.HandleI
-
- setSession(SessionI) - Method in interface omero.cmd.SessionAware
-
- setSessionID(String) - Method in class loci.ome.io.OmeroReader
-
Deprecated.
- setSessionManager(SessionManager) - Method in class ome.services.blitz.impl.TimelineI
-
- setSessionManager(String, int) - Method in class ome.services.blitz.Router
-
- setShapeSettings(Shape) - Method in class omero.gateway.model.ShapeData
-
Set the settings associated to the shape.
- setSizeC(int) - Method in class omero.gateway.model.PixelsData
-
Sets the number of channels.
- setSizeT(int) - Method in class omero.gateway.model.PixelsData
-
Sets the number of time-points.
- setSizeX(int) - Method in class omero.gateway.model.PixelsData
-
Sets the number of pixels along the X-axis.
- setSizeY(int) - Method in class omero.gateway.model.PixelsData
-
Sets the number of pixels along the Y-axis.
- setSizeZ(int) - Method in class omero.gateway.model.PixelsData
-
Sets the number of pixels along the Z-axis.
- setStack_async(AMD_RawPixelsStore_setStack, byte[], int, int, int, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- setStack_async(AMD_RawPixelsStore_setStack, byte[], int, int, int, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- setStageLabelName(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setStageLabelX(Length, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setStageLabelY(Length, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setStageLabelZ(Length, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setStatisticsEnabled(boolean) - Method in class org.hibernate.stat.ConcurrentStatisticsImpl
-
Enable statistics logs (this is a dynamic parameter)
- setStatus(int) - Method in class ome.formats.importer.util.ErrorContainer
-
set the status for this error
- setStatus(String) - Method in class omero.gateway.model.PlateData
-
Sets the status.
- setStatus(String) - Method in class omero.gateway.model.WellData
-
Sets the status of the well.
- setStatus_async(AMD_JobHandle_setStatus, String, Current) - Method in class ome.services.blitz.impl.JobHandleI
-
- setStatusAndMessage_async(AMD_JobHandle_setStatusAndMessage, String, RString, Current) - Method in class ome.services.blitz.impl.JobHandleI
-
- setSteps(int) - Method in class omero.cmd.Helper
-
- setStroke(Color) - Method in class omero.gateway.model.ShapeSettingsData
-
Set the stroke color.
- setStrokeDashArray(double[]) - Method in class omero.gateway.model.ShapeSettingsData
-
Set the stroke dashes.
- setStrokeWidth(Length) - Method in class omero.gateway.model.ShapeSettingsData
-
Set the stroke width.
- setT(int) - Method in class omero.gateway.model.ShapeData
-
Sets the time-point.
- setTableID(long) - Method in class omero.gateway.model.TableResult
-
Sets the id of the table.
- setTagAnnotationAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTagAnnotationAnnotator(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTagAnnotationDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTagAnnotationID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTagAnnotationNamespace(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTagAnnotationValue(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTagDescription(String) - Method in class omero.gateway.model.TagAnnotationData
-
Sets the description of the tag.
- setTagDescriptions(List<TextualAnnotationData>) - Method in class omero.gateway.model.TagAnnotationData
-
Sets the tag's descriptions.
- setTagValue(String) - Method in class omero.gateway.model.TagAnnotationData
-
Sets the value of the tag.
- setTarget(IObject) - Method in class ome.formats.importer.ImportContainer
-
- setTemperature(Temperature) - Method in class omero.gateway.model.ImageAcquisitionData
-
Sets the temperature.
- setTerm(String) - Method in class omero.gateway.model.TermAnnotationData
-
Sets the term.
- setTermAnnotationAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTermAnnotationAnnotator(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTermAnnotationDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTermAnnotationID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTermAnnotationNamespace(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTermAnnotationValue(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTermDescription(String) - Method in class omero.gateway.model.TermAnnotationData
-
Sets the description of the tag.
- setText(String) - Method in class omero.gateway.model.EllipseData
-
Sets the text of the shape.
- setText(String) - Method in class omero.gateway.model.LineData
-
Sets the text of the shape.
- setText(String) - Method in class omero.gateway.model.MaskData
-
Sets the text of the shape.
- setText(String) - Method in class omero.gateway.model.PointData
-
Sets the text of the shape.
- setText(String) - Method in class omero.gateway.model.PolygonData
-
Sets the text of the shape.
- setText(String) - Method in class omero.gateway.model.PolylineData
-
Sets the text of the shape.
- setText(String) - Method in class omero.gateway.model.RectangleData
-
Sets the text of the shape.
- setText(String) - Method in class omero.gateway.model.TextData
-
Sets the text of the shape.
- setText(String) - Method in class omero.gateway.model.TextualAnnotationData
-
Sets the text.
- setText(String) - Method in class omero.gateway.model.XMLAnnotationData
-
Sets the text value.
- setThumbnailService(ThumbnailService) - Method in class omero.cmd.graphs.DiskUsage2I
-
- setTie(TieBase) - Method in class ome.services.blitz.impl.RawFileStoreI
-
- setTie(TieBase) - Method in interface omero.util.TieAware
-
- setTiffDataFirstC(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTiffDataFirstT(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTiffDataFirstZ(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTiffDataIFD(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTiffDataPlaneCount(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTile(Long, byte[], int, int, int, int, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
Writes a tile of pixels to the server.
- setTile(byte[], int, int, int, int, int, int, int) - Method in class omero.util.RPSTileData
-
- setTile(byte[], int, int, int, int, int, int, int) - Method in interface omero.util.TileData
-
- setTile_async(AMD_RawPixelsStore_setTile, byte[], int, int, int, int, int, int, int, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- setTile_async(AMD_RawPixelsStore_setTile, byte[], int, int, int, int, int, int, int, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- setTimeInterval(Timestamp, Timestamp, int) - Method in class omero.gateway.model.SearchParameters
-
Sets the time interval.
- setTimeout(int) - Method in class ome.services.blitz.Router
-
- setTimepoint_async(AMD_RawPixelsStore_setTimepoint, byte[], int, Current) - Method in class ome.services.blitz.impl.RawPixelsStoreI
-
- setTimepoint_async(AMD_RawPixelsStore_setTimepoint, byte[], int, Current) - Method in class ome.services.blitz.repo.BfPixelsStoreI
-
- setTimestampAnnotationAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTimestampAnnotationAnnotator(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTimestampAnnotationDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTimestampAnnotationID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTimestampAnnotationNamespace(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTimestampAnnotationValue(Timestamp, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- settings - Variable in class omero.gateway.model.ShapeData
-
The representation of the shape.
- setToken(String) - Method in class ome.formats.importer.util.ErrorContainer
-
- setTransform(AffineTransform) - Method in class omero.gateway.model.ShapeData
-
Sets the Affine transform of the shape.
- setTransmittanceRangeCutIn(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTransmittanceRangeCutInTolerance(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTransmittanceRangeCutOut(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTransmittanceRangeCutOutTolerance(Length, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setTransmittanceRangeTransmittance(PercentFraction, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setType(Class<? extends DataObject>) - Method in class omero.gateway.model.SearchResult
-
Set the type (class) of objects to search for see
DataObject
- setType(Class<?>) - Method in class omero.gateway.model.TableDataColumn
-
Set the data type
- setUIBounds(Rectangle) - Method in class ome.formats.importer.ImportConfig
-
- setUIBounds(Rectangle) - Method in class ome.formats.importer.util.IniFileLoader
-
Set ui bounds for application
- setUnit(UnitsElectricPotential, Current) - Method in class omero.model.ElectricPotentialI
-
- setUnit(UnitsFrequency, Current) - Method in class omero.model.FrequencyI
-
- setUnit(UnitsLength, Current) - Method in class omero.model.LengthI
-
- setUnit(UnitsPower, Current) - Method in class omero.model.PowerI
-
- setUnit(UnitsPressure, Current) - Method in class omero.model.PressureI
-
- setUnit(UnitsTemperature, Current) - Method in class omero.model.TemperatureI
-
- setUnit(UnitsTime, Current) - Method in class omero.model.TimeI
-
- setUp() - Method in class ome.formats.importer.ImportFixture
-
checks for the necessary fields and initializes the
ImportLibrary
- setUp() - Method in class ome.formats.OMEROImportFixture
-
Deprecated.
checks for the necessary fields and initializes the
ImportLibrary
- setUpdateEvent(Event, Current) - Method in class omero.model.DetailsI
-
- setUploadUrl(String) - Method in class ome.formats.importer.util.ErrorContainer
-
- setUsedFiles(String[]) - Method in class ome.formats.importer.ImportContainer
-
Set the list of image file names that belong to this import container.
- setUseProjections_async(AMD_Search_setUseProjections, boolean, Current) - Method in class ome.services.blitz.impl.SearchI
-
- setUseQuaqua(boolean) - Method in class ome.formats.importer.ImportConfig
-
- setUseQuaqua(boolean) - Method in class ome.formats.importer.util.IniFileLoader
-
- setUserAnnotate(boolean, Current) - Method in class omero.model.PermissionsI
-
- setUserDisableHistory(boolean) - Method in class ome.formats.importer.ImportConfig
-
- setUserDisableHistory(boolean) - Method in class ome.formats.importer.util.IniFileLoader
-
Set if history should be disabled.
- setUserFullPath(boolean) - Method in class ome.formats.importer.ImportConfig
-
Deprecated.
- setUserFullPath(boolean) - Method in class ome.formats.importer.util.IniFileLoader
-
Deprecated.
- setUserId(long) - Method in class omero.gateway.model.SearchParameters
-
- setUsername(String) - Method in class loci.ome.io.OmeroReader
-
Deprecated.
- setUsername(String) - Method in class omero.gateway.UserCredentials
-
Sets the username (or session ID)
- setUserPixels(Double[]) - Method in class ome.formats.importer.ImportContainer
-
- setUserRead(boolean) - Method in class omero.gateway.model.PermissionData
-
Sets to true
if the user has read access,
false
otherwise.
- setUserRead(boolean, Current) - Method in class omero.model.PermissionsI
-
- setUserSpecifiedAnnotations(List<Annotation>) - Method in interface ome.formats.model.IObjectContainerStore
-
Sets the user specified image annotations.
- setUserSpecifiedAnnotations(List<Annotation>) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setUserSpecifiedDescription(String) - Method in class ome.formats.importer.ImportContainer
-
Sets the custom image/plate description for import.
- setUserSpecifiedDescription(String) - Method in interface ome.formats.model.IObjectContainerStore
-
Sets the user specified image/plate description.
- setUserSpecifiedDescription(String) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setUserSpecifiedName(String) - Method in class ome.formats.importer.ImportContainer
-
Sets the custom image/plate name for import.
- setUserSpecifiedName(String) - Method in interface ome.formats.model.IObjectContainerStore
-
Sets the user specified image/plate name.
- setUserSpecifiedName(String) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setUserSpecifiedPhysicalPixelSizes(Double, Double, Double) - Method in interface ome.formats.model.IObjectContainerStore
-
Sets the user specified physical pixel sizes.
- setUserSpecifiedPhysicalPixelSizes(Double, Double, Double) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setUserSpecifiedTarget(IObject) - Method in interface ome.formats.model.IObjectContainerStore
-
Sets the user-specified linkage target (usually a Dataset for Images)
and a Screen for Plates).
- setUserSpecifiedTarget(IObject) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setUserWrite(boolean) - Method in class omero.gateway.model.PermissionData
-
Sets to true
if the user has write access,
false
otherwise.
- setUserWrite(boolean, Current) - Method in class omero.model.PermissionsI
-
- setUUID(String) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setUuid(String) - Method in class omero.gateway.model.ROIData
-
Set the UUID
- setUUIDFileName(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setUUIDValue(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setValue(boolean) - Method in class omero.gateway.model.BooleanAnnotationData
-
Returns the text.
- setValue(IObject) - Method in class omero.gateway.model.DataObject
-
Sets the IObject
.
- setValue(double, Current) - Method in class omero.model.ElectricPotentialI
-
- setValue(double, Current) - Method in class omero.model.FrequencyI
-
- setValue(double, Current) - Method in class omero.model.LengthI
-
- setValue(double, Current) - Method in class omero.model.PowerI
-
- setValue(double, Current) - Method in class omero.model.PressureI
-
- setValue(double, Current) - Method in class omero.model.TemperatureI
-
- setValue(double, Current) - Method in class omero.model.TimeI
-
- setVersion(int) - Method in class omero.gateway.model.DataObject
-
Sets the version of the object if it is immutable.
- setVersionNumber(String) - Method in class ome.formats.importer.ImportConfig
-
- setWellAnnotationRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setWellColor(Color, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setWellColumn(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setWellExternalDescription(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setWellExternalIdentifier(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setWellID(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setWellReagentRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setWellRow(NonNegativeInteger, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setWellSampleID(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setWellSampleImageRef(String, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setWellSampleIndex(NonNegativeInteger, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setWellSamplePositionX(Length, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setWellSamplePositionY(Length, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setWellSamples(List<WellSampleData>) - Method in class omero.gateway.model.WellData
-
Sets the well samples linked to the well.
- setWellSampleTimepoint(Timestamp, int, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setWellType(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setWellType(String) - Method in class omero.gateway.model.WellData
-
Sets a human readable identifier for the screening status e.g. empty,
positive control, etc.
- setWidth(double) - Method in class omero.gateway.model.MaskData
-
Sets the width of an untransformed mask.
- setWidth(double) - Method in class omero.gateway.model.RectangleData
-
Sets width of an untransformed rectangle.
- setWorldAnnotate(boolean, Current) - Method in class omero.model.PermissionsI
-
- setWorldRead(boolean) - Method in class omero.gateway.model.PermissionData
-
Sets to true
if the world has read access,
false
otherwise.
- setWorldRead(boolean, Current) - Method in class omero.model.PermissionsI
-
- setWorldWrite(boolean) - Method in class omero.gateway.model.PermissionData
-
Sets to true
if the world has write access,
false
otherwise.
- setWorldWrite(boolean, Current) - Method in class omero.model.PermissionsI
-
- setX(double) - Method in class omero.gateway.model.EllipseData
-
Sets the x-coordinate of the center of the ellipse.
- setX(double) - Method in class omero.gateway.model.MaskData
-
Sets the x-coordinate top-left corner of an untransformed mask.
- setX(double) - Method in class omero.gateway.model.PointData
-
set the x-coordinate of the shape.
- setX(double) - Method in class omero.gateway.model.RectangleData
-
Sets the x-coordinate of the top-left corner of an
untransformed rectangle.
- setX(double) - Method in class omero.gateway.model.TextData
-
Sets the x-coordinate of the text field.
- setX1(double) - Method in class omero.gateway.model.LineData
-
Set the x-coordinate of the starting point of an untransformed line.
- setX2(double) - Method in class omero.gateway.model.LineData
-
Set the x-coordinate of the end point of an untransformed line.
- setXMLAnnotationAnnotationRef(String, int, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setXMLAnnotationAnnotator(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setXMLAnnotationDescription(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setXMLAnnotationID(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setXMLAnnotationNamespace(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setXMLAnnotationValue(String, int) - Method in class ome.formats.OMEROMetadataStoreClient
-
- setY(double) - Method in class omero.gateway.model.EllipseData
-
Sets the y-coordinate of the center of the ellipse.
- setY(double) - Method in class omero.gateway.model.MaskData
-
Sets the y-coordinate top-left corner of an untransformed mask.
- setY(double) - Method in class omero.gateway.model.PointData
-
set the y-coordinate of the shape.
- setY(double) - Method in class omero.gateway.model.RectangleData
-
Sets the y-coordinate of the top-left corner of an untransformed
rectangle.
- setY(double) - Method in class omero.gateway.model.TextData
-
Sets the y-coordinate of the text field.
- setY1(double) - Method in class omero.gateway.model.LineData
-
Set the y-coordinate of the starting point of an untransformed line.
- setY2(double) - Method in class omero.gateway.model.LineData
-
Set the y-coordinate of the end point of an untransformed line.
- setZ(int) - Method in class omero.gateway.model.ShapeData
-
Sets the z-section.
- sf - Variable in class ome.services.blitz.impl.MetadataStoreI
-
- sf - Variable in class ome.services.blitz.util.FindServiceFactoryMessage
-
- sha1(File) - Method in class omero.client
-
Calculates the local sha1 for a file.
- Shape_FontSize - Static variable in class ome.formats.model.UnitsFactory
-
- Shape_StrokeWidth - Static variable in class ome.formats.model.UnitsFactory
-
- ShapeData - Class in omero.gateway.model
-
Hosts a shape.
- ShapeData(Shape, boolean) - Constructor for class omero.gateway.model.ShapeData
-
Creates a new instance.
- ShapeData(Shape) - Constructor for class omero.gateway.model.ShapeData
-
Creates a new instance.
- ShapeProcessor - Class in ome.formats.model
-
Processes the shapes of a IObjectContainerStore and ensures
that the ROI containers are present.
- ShapeProcessor() - Constructor for class ome.formats.model.ShapeProcessor
-
- ShapeSettingsData - Class in omero.gateway.model
-
Stores the settings related to a given shape.
- sharedResources(Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- SharedResourcesI - Class in ome.services.blitz.impl
-
Implementation of the SharedResources interface.
- SharedResourcesI(BlitzExecutor, TopicManager, Registry, ScriptRepoHelper, ParamsCache) - Constructor for class ome.services.blitz.impl.SharedResourcesI
-
- SharedResourcesI(BlitzExecutor, TopicManager, Registry, ScriptRepoHelper, ParamsCache, long) - Constructor for class ome.services.blitz.impl.SharedResourcesI
-
- SharedResourcesI(BlitzExecutor, TopicManager, Registry, ScriptRepoHelper, ParamsCache, long, long) - Constructor for class ome.services.blitz.impl.SharedResourcesI
-
- ShareI - Class in ome.services.blitz.impl
-
Implementation of the IShare service.
- ShareI(IShare, BlitzExecutor) - Constructor for class ome.services.blitz.impl.ShareI
-
- shortName - Variable in class ome.formats.importer.ImportEvent.COUNT_EVENT
-
- shutdown(boolean) - Method in class ome.services.blitz.Entry
-
Calls OmeroContext.closeAll()
to recursively close all
OMERO.blitz resources in the reverse order that they were created.
- shutdown(Current) - Method in class ome.services.blitz.impl.ScriptProcessI
-
- shutdown() - Method in class ome.services.blitz.repo.ManagedImportProcessI
-
- shutdown() - Method in interface ome.services.blitz.repo.ProcessContainer.Process
-
- shutDown() - Method in interface omero.gateway.cache.CacheService
-
Shuts the cache down.
- shutdownAll() - Method in class ome.services.blitz.repo.ProcessContainer
-
Called on shutdown of the server.
- shutDownDerivedConnector(SecurityContext) - Method in class omero.gateway.Gateway
-
Shuts down the connectors created while creating/importing data for other
users.
- shutdownRenderingEngine(SecurityContext, long) - Method in class omero.gateway.Gateway
-
Shuts down the rendering engine
- SimpleLogger - Class in omero.log
-
A simple
Logger
implementation which just prints the
messages to the console
- SimpleLogger() - Constructor for class omero.log.SimpleLogger
-
- singleFile(File, ImportConfig) - Method in class ome.formats.importer.ImportCandidates
-
Return an import container for a single file
- size() - Method in class ome.formats.importer.ImportCandidates
-
- size - Variable in class ome.formats.importer.ImportEvent.PROGRESS_EVENT
-
- size() - Method in class ome.services.blitz.repo.CheckedPath
-
Return the size of this file on the underlying filesystem.
- size() - Method in class omero.util.Resources
-
- size_async(AMD_RawFileStore_size, Current) - Method in class ome.services.blitz.impl.RawFileStoreI
-
- sizeC - Variable in class ome.formats.importer.ImportSize
-
- sizeC - Variable in class ome.services.formats.OmeroReader
-
- sizeImages() - Method in class ome.services.blitz.impl.OmeroMetadata
-
- sizeT - Variable in class ome.formats.importer.ImportSize
-
- sizeT - Variable in class ome.services.formats.OmeroReader
-
- sizeX - Variable in class ome.formats.importer.ImportSize
-
- sizeX - Variable in class ome.services.formats.OmeroReader
-
- sizeY - Variable in class ome.formats.importer.ImportSize
-
- sizeY - Variable in class ome.services.formats.OmeroReader
-
- sizeZ - Variable in class ome.formats.importer.ImportSize
-
- sizeZ - Variable in class ome.services.formats.OmeroReader
-
- skipHead() - Static method in class omero.gateway.util.Requests
-
- SkipHeadBuilder() - Constructor for class omero.gateway.util.Requests.SkipHeadBuilder
-
Instantiate a new SkipHead
and initialize its collection containers.
- SkipHeadI - Class in omero.cmd.graphs
-
The skip-head request performs the wrapped request twice: once in dry run mode to discover from which model objects to start,
and then actually starting from those objects.
- SkipHeadI(GraphPathBean, GraphRequestFactory) - Constructor for class omero.cmd.graphs.SkipHeadI
-
- SkipHeadPolicy - Class in omero.cmd.graphs
-
Adjust graph traversal policy to prevent descent into inclusions beyond certain types.
- SkipHeadPolicy() - Constructor for class omero.cmd.graphs.SkipHeadPolicy
-
- SkipTailPolicy - Class in omero.cmd.graphs
-
Adjust graph traversal policy to avoid processing or acting on certain model object classes.
- SkipTailPolicy() - Constructor for class omero.cmd.graphs.SkipTailPolicy
-
- Slot - Class in ome.services.throttling
-
Worker which consumes from the
Queue
.
- Slot(Queue) - Constructor for class ome.services.throttling.Slot
-
- sm - Variable in class ome.services.blitz.impl.TimelineI
-
- SmartEllipseI - Class in omero.model
-
- SmartEllipseI() - Constructor for class omero.model.SmartEllipseI
-
- SmartLineI - Class in omero.model
-
- SmartLineI() - Constructor for class omero.model.SmartLineI
-
- SmartMaskI - Class in omero.model
-
- SmartMaskI() - Constructor for class omero.model.SmartMaskI
-
- SmartPathI - Class in omero.model
-
- SmartPathI() - Constructor for class omero.model.SmartPathI
-
- SmartPointI - Class in omero.model
-
- SmartPointI() - Constructor for class omero.model.SmartPointI
-
- SmartPolygonI - Class in omero.model
-
- SmartPolygonI() - Constructor for class omero.model.SmartPolygonI
-
- SmartPolylineI - Class in omero.model
-
- SmartPolylineI() - Constructor for class omero.model.SmartPolylineI
-
- SmartRectI - Class in omero.model
-
- SmartRectI() - Constructor for class omero.model.SmartRectI
-
- SmartShape - Interface in omero.model
-
Orthogonal interface hierarchy of types for working with the
Shape
hierarchy.
- SmartShape.PointCallback - Interface in omero.model
-
Callback interface passed every point which is within the area of this
shape.
- SmartShape.Util - Class in omero.model
-
Utility class used as a mixin by all of the
SmartShape
implementations.
- SmartTextI - Class in omero.model
-
- SmartTextI() - Constructor for class omero.model.SmartTextI
-
- SortDatasetsByName - Class in ome.formats
-
- SortDatasetsByName() - Constructor for class ome.formats.SortDatasetsByName
-
- SortProjectsByName - Class in ome.formats
-
- SortProjectsByName() - Constructor for class ome.formats.SortProjectsByName
-
- source - Variable in class ome.formats.importer.util.ErrorHandler.UNKNOWN_FORMAT
-
- source - Variable in class ome.formats.importer.util.ErrorHandler.UNREADABLE_FILE
-
- splitString(String) - Static method in class omero.gateway.util.Utils
-
Returns the partial name of the image's name
- sql - Variable in class ome.services.blitz.impl.MetadataStoreI
-
- sql - Variable in class ome.services.blitz.impl.RoiI
-
- sql - Variable in class ome.services.roi.GeomTool
-
- srcFiles - Variable in class ome.formats.importer.ImportEvent.FILESET_UPLOAD_END
-
- ss - Variable in class ome.services.blitz.impl.TimelineI
-
- stackTraceAsString(Throwable) - Method in class ome.services.blitz.repo.PublicRepositoryI
-
- StageLabel_X - Static variable in class ome.formats.model.UnitsFactory
-
- StageLabel_Y - Static variable in class ome.formats.model.UnitsFactory
-
- StageLabel_Z - Static variable in class ome.formats.model.UnitsFactory
-
- start() - Method in class ome.formats.importer.cli.CommandLineImporter
-
- start(TransferState) - Method in class ome.formats.importer.transfers.AbstractFileTransfer
-
Minimal start method which logs the file, calls
TransferState.start()
, and loads the
RawFileStorePrx
which any implementation will need.
- start() - Method in class ome.formats.importer.transfers.TransferState
-
- start() - Method in class ome.formats.importer.util.ProportionalTimeEstimatorImpl
-
- start() - Method in interface ome.formats.importer.util.TimeEstimator
-
Starts the time counting.
- start() - Method in class ome.services.blitz.Entry
-
Obtains the
named
OmeroContext
, creating it if
necessary, and then delegates to
Communicator.waitForShutdown()
until either it is externally
shutdown, or until a signal is caught.
- start() - Method in class ome.services.blitz.Router
-
- startFrom(Iterable<String>) - Method in class omero.gateway.util.Requests.SkipHeadBuilder
-
- startFrom(Class<? extends IObject>...) - Method in class omero.gateway.util.Requests.SkipHeadBuilder
-
- startFrom(String...) - Method in class omero.gateway.util.Requests.SkipHeadBuilder
-
- startTime(RTime) - Method in class omero.sys.ParametersI
-
Sets the value of the start time
parameter.
- statefulExecutor - Variable in class ome.services.blitz.repo.RepositoryDaoImpl
-
- status() - Method in class ome.services.blitz.Entry
-
- Status - Class in ome.services.blitz
-
Status check for OMERO.blitz.
- Status(String[]) - Constructor for class ome.services.blitz.Status
-
- step - Variable in class ome.formats.importer.ImportEvent.IMPORT_STEP
-
- step(int, int, Current) - Method in class ome.formats.importer.ImportLibrary.ImportCallback
-
- step(int) - Method in class ome.services.blitz.impl.commands.SaveI
-
- step(int) - Method in class ome.services.blitz.repo.ManagedImportRequestI
-
- step(int) - Method in class ome.services.blitz.repo.RawAccessRequestI
-
- step(int) - Method in class omero.cmd.admin.CurrentSessionsRequestI
-
- step(int) - Method in class omero.cmd.admin.ResetPasswordRequestI
-
- step(int) - Method in class omero.cmd.admin.UpdateSessionTimeoutRequestI
-
- step(int) - Method in class omero.cmd.basic.DoAllI
-
- step(int) - Method in class omero.cmd.basic.ListRequestsI
-
- step(int) - Method in class omero.cmd.basic.TimingI
-
- step(int, int, Current) - Method in class omero.cmd.CmdCallbackI
-
Called periodically by the server to signal that processing is
moving forward.
- step(int) - Method in class omero.cmd.fs.FindPyramidsI
-
- step(int) - Method in class omero.cmd.fs.ManageImageBinariesI
-
- step(int) - Method in class omero.cmd.fs.OriginalMetadataRequestI
-
- step(int) - Method in class omero.cmd.fs.UsedFilesRequestI
-
- step(int) - Method in class omero.cmd.graphs.Chgrp2I
-
- step(int) - Method in class omero.cmd.graphs.Chmod2I
-
- step(int) - Method in class omero.cmd.graphs.Chown2I
-
- step(int) - Method in class omero.cmd.graphs.Delete2I
-
- step(int) - Method in class omero.cmd.graphs.DiskUsage2I
-
- step(int) - Method in class omero.cmd.graphs.DiskUsageI
-
Deprecated.
- step(int) - Method in class omero.cmd.graphs.DuplicateI
-
- step(int) - Method in class omero.cmd.graphs.FindChildrenI
-
- step(int) - Method in class omero.cmd.graphs.FindParentsI
-
- step(int) - Method in class omero.cmd.graphs.LegalGraphTargetsI
-
- step(int) - Method in class omero.cmd.graphs.SkipHeadI
-
- step(int) - Method in interface omero.cmd.IRequest
-
Single uncancellable action which will be performed by this IRequest.
- step(int) - Method in class omero.cmd.mail.SendEmailRequestI
-
- steps(SqlAction, Session, ServiceFactory) - Method in class omero.cmd.HandleI
-
- stop() - Method in class ome.formats.importer.transfers.TransferState
-
- stop(long) - Method in class ome.formats.importer.transfers.TransferState
-
- stop() - Method in class ome.formats.importer.util.ProportionalTimeEstimatorImpl
-
- stop(long) - Method in class ome.formats.importer.util.ProportionalTimeEstimatorImpl
-
- stop() - Method in interface ome.formats.importer.util.TimeEstimator
-
Stops the time counting and updates the internal time counter.
- stop(long) - Method in interface ome.formats.importer.util.TimeEstimator
-
Stops the time counting and updates the internal updates the internal
time counter and counter of total number of transmitted bytes.
- stop(Current) - Method in class omero.grid.InteractiveProcessorI
-
Cancels the current process, nulls the value, and returns immediately
if detach is false.
- stopBefore(Iterable<String>) - Method in class omero.gateway.util.Requests.FindChildrenBuilder
-
- stopBefore(Class<? extends IObject>...) - Method in class omero.gateway.util.Requests.FindChildrenBuilder
-
- stopBefore(String...) - Method in class omero.gateway.util.Requests.FindChildrenBuilder
-
- stopBefore(Iterable<String>) - Method in class omero.gateway.util.Requests.FindParentsBuilder
-
- stopBefore(Class<? extends IObject>...) - Method in class omero.gateway.util.Requests.FindParentsBuilder
-
- stopBefore(String...) - Method in class omero.gateway.util.Requests.FindParentsBuilder
-
- StopBeforeHelper<X> - Class in omero.cmd.graphs
-
Calculates suggestions for the stopBefore
property of FindParents
and FindChildren
.
- StopBeforeHelper() - Constructor for class omero.cmd.graphs.StopBeforeHelper
-
- store() - Method in class ome.formats.importer.ImportConfig.PassValue
-
- store() - Method in class ome.formats.importer.ImportConfig.Value
-
Stores the current value back to some medium.
- store - Variable in class ome.formats.OMEROImportFixture
-
Deprecated.
- store - Variable in class ome.services.blitz.impl.MetadataStoreI
-
- store(Object, Object) - Method in class omero.util.IceMapper
-
- STRING_TO_RSTRING - Static variable in class omero.util.IceMapper
-
- StrValue(String, ImportConfig) - Constructor for class ome.formats.importer.ImportConfig.StrValue
-
- StrValue(String, ImportConfig, String) - Constructor for class ome.formats.importer.ImportConfig.StrValue
-
- StrValue(String, ImportConfig, String, String) - Constructor for class ome.formats.importer.ImportConfig.StrValue
-
- subcancel(HandleI.Cancel, DoAllI.X) - Method in class omero.cmd.basic.DoAllI
-
- subfolderCount() - Method in class omero.gateway.model.FolderData
-
Get the number of sub folders
- subhelper(Request, Status) - Method in class omero.cmd.Helper
-
- submit(Callable<T>) - Method in class omero.gateway.Gateway
-
Submits an async task
- submit(SecurityContext, List<Request>, SecurityContext) - Method in class omero.gateway.Gateway
-
Executes the commands.
- submit(SecurityContext, Request) - Method in class omero.gateway.Gateway
-
Directly submit a Request
to the server
- submit_async(AMD_JobHandle_submit, Job, Current) - Method in class ome.services.blitz.impl.JobHandleI
-
- submit_async(AMD_Session_submit, Request, Current) - Method in class omero.cmd.SessionI
-
- submit_async(AMD_Session_submit, Request, Current, Executor.Priority) - Method in class omero.cmd.SessionI
-
- submitRequest(ServiceFactoryI, Request, Current) - Method in class ome.services.blitz.repo.PublicRepositoryI
-
- submitRequest(ServiceFactoryI, Request, Current, Executor.Priority) - Method in class ome.services.blitz.repo.PublicRepositoryI
-
- subscribe(String, ObjectPrx, Current) - Method in class ome.services.blitz.impl.ServiceFactoryI
-
- sudo(Current, String) - Method in class ome.services.blitz.repo.PublicRepositoryI
-
Provide a Current
like the given one, except with the request context session UUID replaced.
- sudo() - Method in class omero.gateway.SecurityContext
-
Indicates to create a session for another user.
- suggestChecksumAlgorithm(List<ChecksumAlgorithm>, Current) - Method in class ome.services.blitz.repo.ManagedRepositoryI
-
- suggestExclusion(ServiceFactoryPrx, ImportContainer) - Method in class ome.formats.importer.exclusions.ClientPathExclusion
-
- suggestExclusion(ServiceFactoryPrx, ImportContainer) - Method in interface ome.formats.importer.exclusions.FileExclusion
-
Given the current
session
attempt to discover
if the given
container
should be skipped, i.e.
- suggestExclusion(ServiceFactoryPrx, ImportContainer) - Method in class ome.formats.importer.exclusions.FilenameExclusion
-
- suggestImportPaths(FsFile, FsFile, List<FsFile>, Class<? extends FormatReader>, ChecksumAlgorithm, Current) - Method in class ome.services.blitz.repo.ManagedRepositoryI
-
Take a relative path that the user would like to see in his or her
upload area, and provide an import location instance whose paths
correspond to existing directories corresponding to the sanitized
file paths.
- SymlinkFileTransfer - Class in ome.formats.importer.transfers
-
Local-only file transfer mechanism which makes use of soft-linking.
- SymlinkFileTransfer() - Constructor for class ome.formats.importer.transfers.SymlinkFileTransfer
-
- synchronizeJobs() - Method in class ome.services.blitz.util.CheckAllJobs
-
- synchronizeLoginCache_async(AMD_IAdmin_synchronizeLoginCache, Current) - Method in class ome.services.blitz.impl.AdminI
-
- SYSTEM - Static variable in class omero.gateway.model.GroupData
-
Identifies the System
group.