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SUMMARY: NESTED | FIELD | CONSTR | METHOD | DETAIL: FIELD | CONSTR | METHOD |
java.lang.Objectome.formats.OMEROMetadataStoreClient
public class OMEROMetadataStoreClient
Client side implementation of the Bio-Formats MetadataStore
. It is
responsible for handling metadata from Bio-Formats and maintaining
communication with an OMERO server.
Field Summary | |
---|---|
static String |
OMERO_EMISSION_FILTER_SUFFIX
Emission filter LSID suffix. |
static String |
OMERO_EXCITATION_FILTER_SUFFIX
Excitation filter LSID suffix. |
Constructor Summary | |
---|---|
OMEROMetadataStoreClient()
|
Method Summary | ||
---|---|---|
omero.model.Dataset |
addDataset(String datasetName,
String datasetDescription,
omero.model.Project project)
|
|
boolean |
addModelProcessor(ModelProcessor processor)
Adds a model processor to the end of the processing chain. |
|
omero.model.Project |
addProject(String projectName,
String projectDescription)
|
|
void |
addReference(ome.util.LSID source,
ome.util.LSID target)
Adds a reference to the reference cache. |
|
omero.model.Screen |
addScreen(String screenName,
String screenDescription)
|
|
static String |
byteArrayToHexString(byte[] in)
|
|
void |
closeServices()
Closes all stateful services. |
|
int |
countCachedContainers(Class<? extends omero.model.IObject> klass,
int... indexes)
Counts the number of containers the MetadataStore has of a given class and at a given index of the hierarchy if specified. |
|
int |
countCachedReferences(Class<? extends omero.model.IObject> source,
Class<? extends omero.model.IObject> target)
Counts the number of references the MetadataStore has between objects of two classes. |
|
void |
createRoot()
|
|
void |
finalizePixelStore()
Closes the active raw pixels store. |
|
Map<Class<? extends omero.model.IObject>,Map<String,omero.metadatastore.IObjectContainer>> |
getAuthoritativeContainerCache()
Returns the current authoritative LSID container cache. |
|
omero.model.Channel |
getChannel(int imageIndex,
int channelIndex)
|
|
String |
getConfigValue(String key)
Retrieves a configuration value from the IConfig service. |
|
Map<ome.util.LSID,omero.metadatastore.IObjectContainer> |
getContainerCache()
Returns the current container cache. |
|
List<omero.model.Dataset> |
getDatasets(omero.model.Project p)
|
|
List<omero.model.Dataset> |
getDatasetsWithoutProjects()
|
|
int |
getDefaultGroupLevel()
Retrieve teh default groups permission 'level'. |
|
String |
getDefaultGroupName()
Retrieve the default group's name |
|
omero.model.Detector |
getDetector(int instrumentIndex,
int detectorIndex)
|
|
EnumerationProvider |
getEnumerationProvider()
Retrieves the active enumeration provider. |
|
long |
getExperimenterID()
|
|
omero.model.Filament |
getFilament(int instrumentIndex,
int lightSourceIndex)
|
|
List<String> |
getFilteredCompanionFiles()
Returns the current set of filtered companion files that the Bio-Formats image reader contains. |
|
List<String> |
getFilteredSeriesCompanionFiles()
Returns the current set of filtered companion files that the Bio-Formats image reader contains for the current series. |
|
omero.model.FilterSet |
getFilterSet(int instrumentIndex,
int filterSetIndex)
|
|
omero.model.ObjectiveSettings |
getImageObjectiveSettings(int imageIndex)
|
|
omero.model.ImagingEnvironment |
getImagingEnvironment(int imageIndex)
|
|
InstanceProvider |
getInstanceProvider()
Retrieves the active enumeration provider. |
|
omero.metadatastore.IObjectContainer |
getIObjectContainer(Class<? extends omero.model.IObject> klass,
LinkedHashMap<Index,Integer> indexes)
Retrieves an IObject container for a given class and location within the OME-XML data model. |
|
List<omero.metadatastore.IObjectContainer> |
getIObjectContainers(Class<? extends omero.model.IObject> klass)
Retrieves all IObject containers of a given class. |
|
omero.api.IQueryPrx |
getIQuery()
|
|
ClientKeepAlive |
getKeepAlive()
Returns clientKeepAlive created in store |
|
omero.model.Laser |
getLaser(int instrumentIndex,
int lightSourceIndex)
|
|
omero.model.LightEmittingDiode |
getLightEmittingDiode(int instrumentIndex,
int lightSourceIndex)
|
|
omero.model.Line |
getLine(int ROIIndex,
int shapeIndex)
|
|
omero.model.ListAnnotation |
getListAnnotation(int listAnnotationIndex)
|
|
omero.model.LongAnnotation |
getLongAnnotation(int longAnnotationIndex)
|
|
omero.model.Mask |
getMask(int ROIIndex,
int shapeIndex)
|
|
omero.model.MicrobeamManipulation |
getMicrobeamManipulation(int experimentIndex,
int microbeamManipulationIndex)
|
|
omero.model.LightSettings |
getMicrobeamManipulationLightSourceSettings(int experimentIndex,
int microbeamManipulationIndex,
int lightSourceSettingsIndex)
|
|
List<ModelProcessor> |
getModelProcessors()
Retrieves the current list of model processors the metadata store is using. |
|
omero.model.Objective |
getObjective(int instrumentIndex,
int objectiveIndex)
|
|
omero.model.OTF |
getOTF(int instrumentIndex,
int OTFIndex)
|
|
omero.model.Project |
getProject(long projectId)
|
|
List<omero.model.Project> |
getProjects()
|
|
loci.formats.IFormatReader |
getReader()
Returns the current Bio-Formats reader that has been used to populate the container store. |
|
Map<ome.util.LSID,List<ome.util.LSID>> |
getReferenceCache()
Returns the current reference cache. |
|
Map<String,String[]> |
getReferenceStringCache()
Returns the current string based reference cache. |
|
long |
getRepositorySpace()
|
|
Object |
getRoot()
|
|
List<omero.model.Screen> |
getScreens()
|
|
omero.api.ServiceFactoryPrx |
getServiceFactory()
Returns the currently active service factory. |
|
omero.model.IObject |
getSourceObject(ome.util.LSID LSID)
Retrieves an OMERO Blitz source object for a given LSID. |
|
|
getSourceObjects(Class<T> klass)
Retrieves all OMERO Blitz source objects of a given class. |
|
|
getTarget(Class<T> klass,
long id)
Helper method to retrieve an object from iQuery |
|
int[] |
getTileSize(Long pixId)
Retrieves the suggested tile size for a pixels set. |
|
List<omero.model.Annotation> |
getUserSpecifiedAnnotations()
Returns the user specified annotations. |
|
String |
getUserSpecifiedImageDescription()
Returns the user specified image description. |
|
String |
getUserSpecifiedImageName()
Returns the user specified image name. |
|
Double[] |
getUserSpecifiedPhysicalPixelSizes()
Returns the user specified physical pixel sizes. |
|
String |
getUserSpecifiedPlateDescription()
Returns the user specified plate description. |
|
String |
getUserSpecifiedPlateName()
Returns the user specified plate name. |
|
omero.model.IObject |
getUserSpecifiedTarget()
Returns the user specified linkage target (usually a Dataset for Images and a Screen for Plates). |
|
boolean |
hasReference(ome.util.LSID source,
ome.util.LSID target)
Checks to see if there is currently an active reference for two LSIDs. |
|
void |
initialize(client c)
Initializes the MetadataStore with an already logged in, ready to go service factory. |
|
void |
initialize(omero.api.ServiceFactoryPrx serviceFactory)
Initializes the MetadataStore with an already logged in, ready to go service factory. |
|
void |
initialize(String server,
int port,
String sessionKey)
Initializes the MetadataStore by joining an existing session. |
|
void |
initialize(String server,
int port,
String sessionKey,
boolean isSecure)
Initializes the MetadataStore by joining an existing session. |
|
void |
initialize(String username,
String password,
String server,
int port)
Initializes the MetadataStore taking string parameters to feed to the OMERO Blitz client object. |
|
void |
initialize(String username,
String password,
String server,
int port,
boolean isSecure)
Initializes the MetadataStore taking string parameters to feed to the OMERO Blitz client object. |
|
void |
initialize(String username,
String password,
String server,
int port,
long group,
boolean isSecure)
Initializes the MetadataStore taking string parameters to feed to the OMERO Blitz client object. |
|
boolean |
isEncryptedConnection()
|
|
List<omero.grid.InteractiveProcessorPrx> |
launchProcessing()
|
|
void |
logout()
Destroys the sessionFactory and closes the client. |
|
void |
logVersionInfo(String clientVersion)
|
|
Map<Long,String> |
mapUserGroups()
Maps the user's groups for use by ScreenLogin.registerGroup() Also strips system groups from this map |
|
void |
ping()
Pings all registered OMERO Blitz proxies. |
|
void |
populateMinMax()
Sends all the minimums and maximums for all images processed so far to the server. |
|
void |
postProcess()
Post processes the internal structure of the client side MetadataStore. |
|
void |
prepare(Map<Integer,omero.model.Image> existingMetadata)
Prepares the metadata store using existing metadata that has been pre-registered by OMERO.fs. |
|
void |
preparePixelsStore(List<Long> pixelsIds)
Prepares the server side RawPixelsStore. |
|
void |
removeIObjectContainer(ome.util.LSID lsid)
Removes an IObject container from within the OME-XML data model store. |
|
void |
removeModelProcessor(ModelProcessor processor)
Removes a model processor from use. |
|
void |
resetDefaultsAndGenerateThumbnails(List<Long> plateIds,
List<Long> pixelsIds)
Resets the defaults and generates thumbnails for a given set of Pixels IDs. |
|
List<omero.model.Pixels> |
saveToDB()
Updates the server side MetadataStore with a list of our objects and references and saves them into the database. |
|
List<File> |
setArchive(boolean archive,
boolean useMetadataFile)
Populates archive flags on all images currently processed links relevant original metadata files as requested and performs graph logic to have the scaffolding in place for later original file upload. |
|
List<File> |
setArchiveScreeningDomain(boolean archive)
Populates archive flags on all images currently processed links relevant original metadata files as requested and performs graph logic to have the scafolding in place for later original file upload if we are of the HCS domain. |
|
void |
setArcID(String id,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setArcLotNumber(String lotNumber,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setArcManufacturer(String manufacturer,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setArcModel(String model,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setArcPower(Double power,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setArcSerialNumber(String serialNumber,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setArcType(ome.xml.model.enums.ArcType type,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setBinaryOnlyMetadataFile(String metadataFile)
|
|
void |
setBinaryOnlyUUID(String uuid)
|
|
void |
setBooleanAnnotationAnnotationRef(String annotation,
int booleanAnnotationIndex,
int annotationRefIndex)
|
|
void |
setBooleanAnnotationDescription(String description,
int booleanAnnotationIndex)
|
|
void |
setBooleanAnnotationID(String id,
int booleanAnnotationIndex)
|
|
void |
setBooleanAnnotationNamespace(String namespace,
int booleanAnnotationIndex)
|
|
void |
setBooleanAnnotationValue(Boolean value,
int booleanAnnotationIndex)
|
|
void |
setChannelAcquisitionMode(ome.xml.model.enums.AcquisitionMode acquisitionMode,
int imageIndex,
int channelIndex)
|
|
void |
setChannelAnnotationRef(String annotation,
int imageIndex,
int channelIndex,
int annotationRefIndex)
|
|
void |
setChannelColor(Integer color,
int imageIndex,
int channelIndex)
|
|
void |
setChannelContrastMethod(ome.xml.model.enums.ContrastMethod contrastMethod,
int imageIndex,
int channelIndex)
|
|
void |
setChannelEmissionWavelength(ome.xml.model.primitives.PositiveInteger emissionWavelength,
int imageIndex,
int channelIndex)
|
|
void |
setChannelExcitationWavelength(ome.xml.model.primitives.PositiveInteger excitationWavelength,
int imageIndex,
int channelIndex)
(non-Javadoc) |
|
void |
setChannelFilterSetRef(String filterSet,
int imageIndex,
int channelIndex)
|
|
void |
setChannelFluor(String fluor,
int imageIndex,
int channelIndex)
|
|
void |
setChannelGlobalMinMax(int channel,
double minimum,
double maximum,
int series)
|
|
void |
setChannelID(String id,
int imageIndex,
int channelIndex)
|
|
void |
setChannelIlluminationType(ome.xml.model.enums.IlluminationType illuminationType,
int imageIndex,
int channelIndex)
|
|
void |
setChannelLightSourceSettingsAttenuation(ome.xml.model.primitives.PercentFraction attenuation,
int imageIndex,
int channelIndex)
|
|
void |
setChannelLightSourceSettingsID(String id,
int imageIndex,
int channelIndex)
|
|
void |
setChannelLightSourceSettingsWavelength(ome.xml.model.primitives.PositiveInteger wavelength,
int imageIndex,
int channelIndex)
|
|
void |
setChannelName(String name,
int imageIndex,
int channelIndex)
|
|
void |
setChannelNDFilter(Double ndfilter,
int imageIndex,
int channelIndex)
|
|
void |
setChannelOTFRef(String otf,
int imageIndex,
int channelIndex)
|
|
void |
setChannelPinholeSize(Double pinholeSize,
int imageIndex,
int channelIndex)
|
|
void |
setChannelPockelCellSetting(Integer pockelCellSetting,
int imageIndex,
int channelIndex)
|
|
void |
setChannelSamplesPerPixel(ome.xml.model.primitives.PositiveInteger samplesPerPixel,
int imageIndex,
int channelIndex)
|
|
void |
setCommentAnnotationAnnotationRef(String annotation,
int commentAnnotationIndex,
int annotationRefIndex)
|
|
void |
setCommentAnnotationDescription(String description,
int commentAnnotationIndex)
|
|
void |
setCommentAnnotationID(String id,
int commentAnnotationIndex)
|
|
void |
setCommentAnnotationNamespace(String namespace,
int commentAnnotationIndex)
|
|
void |
setCommentAnnotationValue(String value,
int commentAnnotationIndex)
|
|
void |
setCurrentGroup(long groupID)
Changes the default group of the currently logged in user. |
|
void |
setDatasetAnnotationRef(String annotation,
int datasetIndex,
int annotationRefIndex)
|
|
void |
setDatasetDescription(String description,
int datasetIndex)
|
|
void |
setDatasetExperimenterRef(String experimenter,
int datasetIndex)
|
|
void |
setDatasetGroupRef(String group,
int datasetIndex)
|
|
void |
setDatasetID(String id,
int datasetIndex)
|
|
void |
setDatasetName(String name,
int datasetIndex)
|
|
void |
setDatasetProjectRef(String project,
int datasetIndex,
int projectRefIndex)
|
|
void |
setDetectorAmplificationGain(Double amplificationGain,
int instrumentIndex,
int detectorIndex)
|
|
void |
setDetectorGain(Double gain,
int instrumentIndex,
int detectorIndex)
|
|
void |
setDetectorID(String id,
int instrumentIndex,
int detectorIndex)
|
|
void |
setDetectorLotNumber(String lotNumber,
int instrumentIndex,
int detectorIndex)
|
|
void |
setDetectorManufacturer(String manufacturer,
int instrumentIndex,
int detectorIndex)
|
|
void |
setDetectorModel(String model,
int instrumentIndex,
int detectorIndex)
|
|
void |
setDetectorOffset(Double offset,
int instrumentIndex,
int detectorIndex)
|
|
void |
setDetectorSerialNumber(String serialNumber,
int instrumentIndex,
int detectorIndex)
|
|
void |
setDetectorSettingsBinning(ome.xml.model.enums.Binning binning,
int imageIndex,
int channelIndex)
|
|
void |
setDetectorSettingsGain(Double gain,
int imageIndex,
int channelIndex)
|
|
void |
setDetectorSettingsID(String id,
int imageIndex,
int channelIndex)
|
|
void |
setDetectorSettingsOffset(Double offset,
int imageIndex,
int channelIndex)
|
|
void |
setDetectorSettingsReadOutRate(Double readOutRate,
int imageIndex,
int channelIndex)
|
|
void |
setDetectorSettingsVoltage(Double voltage,
int imageIndex,
int channelIndex)
|
|
void |
setDetectorType(ome.xml.model.enums.DetectorType type,
int instrumentIndex,
int detectorIndex)
|
|
void |
setDetectorVoltage(Double voltage,
int instrumentIndex,
int detectorIndex)
|
|
void |
setDetectorZoom(Double zoom,
int instrumentIndex,
int detectorIndex)
|
|
void |
setDichroicID(String id,
int instrumentIndex,
int dichroicIndex)
|
|
void |
setDichroicLotNumber(String lotNumber,
int instrumentIndex,
int dichroicIndex)
|
|
void |
setDichroicManufacturer(String manufacturer,
int instrumentIndex,
int dichroicIndex)
|
|
void |
setDichroicModel(String model,
int instrumentIndex,
int dichroicIndex)
|
|
void |
setDichroicSerialNumber(String serialNumber,
int instrumentIndex,
int dichroicIndex)
|
|
void |
setDoubleAnnotationAnnotationRef(String annotation,
int doubleAnnotationIndex,
int annotationRefIndex)
|
|
void |
setDoubleAnnotationDescription(String description,
int doubleAnnotationIndex)
|
|
void |
setDoubleAnnotationID(String id,
int doubleAnnotationIndex)
|
|
void |
setDoubleAnnotationNamespace(String namespace,
int doubleAnnotationIndex)
|
|
void |
setDoubleAnnotationValue(Double value,
int doubleAnnotationIndex)
|
|
void |
setEllipseDescription(String description,
int ROIIndex,
int shapeIndex)
|
|
void |
setEllipseFill(Integer fill,
int ROIIndex,
int shapeIndex)
|
|
void |
setEllipseFontSize(ome.xml.model.primitives.NonNegativeInteger fontSize,
int ROIIndex,
int shapeIndex)
|
|
void |
setEllipseID(String id,
int ROIIndex,
int shapeIndex)
|
|
void |
setEllipseLabel(String label,
int ROIIndex,
int shapeIndex)
|
|
void |
setEllipseName(String name,
int ROIIndex,
int shapeIndex)
|
|
void |
setEllipseRadiusX(Double radiusX,
int ROIIndex,
int shapeIndex)
|
|
void |
setEllipseRadiusY(Double radiusY,
int ROIIndex,
int shapeIndex)
|
|
void |
setEllipseStroke(Integer stroke,
int ROIIndex,
int shapeIndex)
|
|
void |
setEllipseStrokeDashArray(String strokeDashArray,
int ROIIndex,
int shapeIndex)
|
|
void |
setEllipseStrokeWidth(Double strokeWidth,
int ROIIndex,
int shapeIndex)
|
|
void |
setEllipseTheC(ome.xml.model.primitives.NonNegativeInteger theC,
int ROIIndex,
int shapeIndex)
|
|
void |
setEllipseTheT(ome.xml.model.primitives.NonNegativeInteger theT,
int ROIIndex,
int shapeIndex)
|
|
void |
setEllipseTheZ(ome.xml.model.primitives.NonNegativeInteger theZ,
int ROIIndex,
int shapeIndex)
|
|
void |
setEllipseTransform(String transform,
int ROIIndex,
int shapeIndex)
|
|
void |
setEllipseX(Double x,
int ROIIndex,
int shapeIndex)
|
|
void |
setEllipseY(Double y,
int ROIIndex,
int shapeIndex)
|
|
void |
setEncryptedConnection(boolean encryptedConnection)
|
|
void |
setEnumerationProvider(EnumerationProvider enumProvider)
Sets the active enumeration provider. |
|
void |
setExperimentDescription(String description,
int experimentIndex)
|
|
void |
setExperimenterAnnotationRef(String annotation,
int experimenterIndex,
int annotationRefIndex)
|
|
void |
setExperimenterDisplayName(String displayName,
int experimenterIndex)
|
|
void |
setExperimenterEmail(String email,
int experimenterIndex)
|
|
void |
setExperimenterFirstName(String firstName,
int experimenterIndex)
|
|
void |
setExperimenterGroupRef(String group,
int experimenterIndex,
int groupRefIndex)
|
|
void |
setExperimenterID(String id,
int experimenterIndex)
|
|
void |
setExperimenterInstitution(String institution,
int experimenterIndex)
|
|
void |
setExperimenterLastName(String lastName,
int experimenterIndex)
|
|
void |
setExperimenterMiddleName(String middleName,
int experimenterIndex)
|
|
void |
setExperimenterUserName(String userName,
int experimenterIndex)
|
|
void |
setExperimentExperimenterRef(String experimenter,
int experimentIndex)
|
|
void |
setExperimentID(String id,
int experimentIndex)
|
|
void |
setExperimentType(ome.xml.model.enums.ExperimentType type,
int experimentIndex)
|
|
void |
setFilamentID(String id,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setFilamentLotNumber(String lotNumber,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setFilamentManufacturer(String manufacturer,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setFilamentModel(String model,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setFilamentPower(Double power,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setFilamentSerialNumber(String serialNumber,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setFilamentType(ome.xml.model.enums.FilamentType type,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setFileAnnotationAnnotationRef(String annotation,
int fileAnnotationIndex,
int annotationRefIndex)
|
|
void |
setFileAnnotationBinaryFileFileName(String fileName,
int fileAnnotationIndex)
|
|
void |
setFileAnnotationBinaryFileMIMEType(String mimetype,
int fileAnnotationIndex)
|
|
void |
setFileAnnotationBinaryFileSize(ome.xml.model.primitives.NonNegativeLong size,
int fileAnnotationIndex)
|
|
void |
setFileAnnotationDescription(String description,
int fileAnnotationIndex)
|
|
void |
setFileAnnotationID(String id,
int fileAnnotationIndex)
|
|
void |
setFileAnnotationNamespace(String namespace,
int fileAnnotationIndex)
|
|
void |
setFilterFilterWheel(String filterWheel,
int instrumentIndex,
int filterIndex)
|
|
void |
setFilterID(String id,
int instrumentIndex,
int filterIndex)
|
|
void |
setFilterLotNumber(String lotNumber,
int instrumentIndex,
int filterIndex)
|
|
void |
setFilterManufacturer(String manufacturer,
int instrumentIndex,
int filterIndex)
|
|
void |
setFilterModel(String model,
int instrumentIndex,
int filterIndex)
|
|
void |
setFilterSerialNumber(String serialNumber,
int instrumentIndex,
int filterIndex)
|
|
void |
setFilterSetDichroicRef(String dichroic,
int instrumentIndex,
int filterSetIndex)
|
|
void |
setFilterSetEmissionFilterRef(String emissionFilter,
int instrumentIndex,
int filterSetIndex,
int emissionFilterRefIndex)
|
|
void |
setFilterSetExcitationFilterRef(String excitationFilter,
int instrumentIndex,
int filterSetIndex,
int excitationFilterRefIndex)
|
|
void |
setFilterSetID(String id,
int instrumentIndex,
int filterSetIndex)
|
|
void |
setFilterSetLotNumber(String lotNumber,
int instrumentIndex,
int filterSetIndex)
|
|
void |
setFilterSetManufacturer(String manufacturer,
int instrumentIndex,
int filterSetIndex)
|
|
void |
setFilterSetModel(String model,
int instrumentIndex,
int filterSetIndex)
|
|
void |
setFilterSetSerialNumber(String serialNumber,
int instrumentIndex,
int filterSetIndex)
|
|
void |
setFilterType(ome.xml.model.enums.FilterType type,
int instrumentIndex,
int filterIndex)
|
|
void |
setGroupContact(String contact,
int groupIndex)
|
|
void |
setGroupDescription(String description,
int groupIndex)
|
|
void |
setGroupID(String id,
int groupIndex)
|
|
void |
setGroupLeader(String leader,
int groupIndex)
|
|
void |
setGroupName(String name,
int groupIndex)
|
|
void |
setImageAcquiredDate(String acquiredDate,
int imageIndex)
|
|
void |
setImageAnnotationRef(String annotation,
int imageIndex,
int annotationRefIndex)
|
|
void |
setImageDatasetRef(String dataset,
int imageIndex,
int datasetRefIndex)
|
|
void |
setImageDescription(String description,
int imageIndex)
|
|
void |
setImageExperimenterRef(String experimenter,
int imageIndex)
|
|
void |
setImageExperimentRef(String experiment,
int imageIndex)
|
|
void |
setImageGroupRef(String group,
int imageIndex)
|
|
void |
setImageID(String id,
int imageIndex)
|
|
void |
setImageInstrumentRef(String instrument,
int imageIndex)
|
|
void |
setImageMicrobeamManipulationRef(String microbeamManipulation,
int imageIndex,
int microbeamManipulationRefIndex)
|
|
void |
setImageName(String name,
int imageIndex)
|
|
void |
setImageObjectiveSettingsCorrectionCollar(Double correctionCollar,
int imageIndex)
|
|
void |
setImageObjectiveSettingsID(String id,
int imageIndex)
|
|
void |
setImageObjectiveSettingsMedium(ome.xml.model.enums.Medium medium,
int imageIndex)
|
|
void |
setImageObjectiveSettingsRefractiveIndex(Double refractiveIndex,
int imageIndex)
|
|
void |
setImageROIRef(String roi,
int imageIndex,
int ROIRefIndex)
|
|
void |
setImagingEnvironmentAirPressure(Double airPressure,
int imageIndex)
|
|
void |
setImagingEnvironmentCO2Percent(ome.xml.model.primitives.PercentFraction co2percent,
int imageIndex)
|
|
void |
setImagingEnvironmentHumidity(ome.xml.model.primitives.PercentFraction humidity,
int imageIndex)
|
|
void |
setImagingEnvironmentTemperature(Double temperature,
int imageIndex)
|
|
void |
setInstanceProvider(InstanceProvider instanceProvider)
Sets the active instance provider. |
|
void |
setInstrumentID(String id,
int instrumentIndex)
|
|
void |
setLaserFrequencyMultiplication(ome.xml.model.primitives.PositiveInteger frequencyMultiplication,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLaserID(String id,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLaserLaserMedium(ome.xml.model.enums.LaserMedium laserMedium,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLaserLotNumber(String lotNumber,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLaserManufacturer(String manufacturer,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLaserModel(String model,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLaserPockelCell(Boolean pockelCell,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLaserPower(Double power,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLaserPulse(ome.xml.model.enums.Pulse pulse,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLaserPump(String pump,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLaserRepetitionRate(Double repetitionRate,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLaserSerialNumber(String serialNumber,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLaserTuneable(Boolean tuneable,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLaserType(ome.xml.model.enums.LaserType type,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLaserWavelength(ome.xml.model.primitives.PositiveInteger wavelength,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLightEmittingDiodeID(String id,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLightEmittingDiodeLotNumber(String lotNumber,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLightEmittingDiodeManufacturer(String manufacturer,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLightEmittingDiodeModel(String model,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLightEmittingDiodePower(Double power,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLightEmittingDiodeSerialNumber(String serialNumber,
int instrumentIndex,
int lightSourceIndex)
|
|
void |
setLightPathDichroicRef(String dichroic,
int imageIndex,
int channelIndex)
|
|
void |
setLightPathEmissionFilterRef(String emissionFilter,
int imageIndex,
int channelIndex,
int emissionFilterRefIndex)
|
|
void |
setLightPathExcitationFilterRef(String excitationFilter,
int imageIndex,
int channelIndex,
int excitationFilterRefIndex)
|
|
void |
setLineDescription(String description,
int ROIIndex,
int shapeIndex)
|
|
void |
setLineFill(Integer fill,
int ROIIndex,
int shapeIndex)
|
|
void |
setLineFontSize(ome.xml.model.primitives.NonNegativeInteger fontSize,
int ROIIndex,
int shapeIndex)
|
|
void |
setLineID(String id,
int ROIIndex,
int shapeIndex)
|
|
void |
setLineLabel(String label,
int ROIIndex,
int shapeIndex)
|
|
void |
setLineName(String name,
int ROIIndex,
int shapeIndex)
|
|
void |
setLineStroke(Integer stroke,
int ROIIndex,
int shapeIndex)
|
|
void |
setLineStrokeDashArray(String strokeDashArray,
int ROIIndex,
int shapeIndex)
|
|
void |
setLineStrokeWidth(Double strokeWidth,
int ROIIndex,
int shapeIndex)
|
|
void |
setLineTheC(ome.xml.model.primitives.NonNegativeInteger theC,
int ROIIndex,
int shapeIndex)
|
|
void |
setLineTheT(ome.xml.model.primitives.NonNegativeInteger theT,
int ROIIndex,
int shapeIndex)
|
|
void |
setLineTheZ(ome.xml.model.primitives.NonNegativeInteger theZ,
int ROIIndex,
int shapeIndex)
|
|
void |
setLineTransform(String transform,
int ROIIndex,
int shapeIndex)
|
|
void |
setLineX1(Double x1,
int ROIIndex,
int shapeIndex)
|
|
void |
setLineX2(Double x2,
int ROIIndex,
int shapeIndex)
|
|
void |
setLineY1(Double y1,
int ROIIndex,
int shapeIndex)
|
|
void |
setLineY2(Double y2,
int ROIIndex,
int shapeIndex)
|
|
void |
setListAnnotationAnnotationRef(String annotation,
int listAnnotationIndex,
int annotationRefIndex)
|
|
void |
setListAnnotationDescription(String description,
int listAnnotationIndex)
|
|
void |
setListAnnotationID(String id,
int listAnnotationIndex)
|
|
void |
setListAnnotationNamespace(String namespace,
int listAnnotationIndex)
|
|
void |
setLongAnnotationAnnotationRef(String annotation,
int longAnnotationIndex,
int annotationRefIndex)
|
|
void |
setLongAnnotationDescription(String description,
int longAnnotationIndex)
|
|
void |
setLongAnnotationID(String id,
int longAnnotationIndex)
|
|
void |
setLongAnnotationNamespace(String namespace,
int longAnnotationIndex)
|
|
void |
setLongAnnotationValue(Long value,
int longAnnotationIndex)
|
|
void |
setMaskBinData(byte[] binData,
int roiIndex,
int shapeIndex)
|
|
void |
setMaskDescription(String description,
int ROIIndex,
int shapeIndex)
|
|
void |
setMaskFill(Integer fill,
int ROIIndex,
int shapeIndex)
|
|
void |
setMaskFontSize(ome.xml.model.primitives.NonNegativeInteger fontSize,
int ROIIndex,
int shapeIndex)
|
|
void |
setMaskHeight(Double height,
int ROIIndex,
int shapeIndex)
|
|
void |
setMaskID(String id,
int ROIIndex,
int shapeIndex)
|
|
void |
setMaskLabel(String label,
int ROIIndex,
int shapeIndex)
|
|
void |
setMaskName(String name,
int ROIIndex,
int shapeIndex)
|
|
void |
setMaskStroke(Integer stroke,
int ROIIndex,
int shapeIndex)
|
|
void |
setMaskStrokeDashArray(String strokeDashArray,
int ROIIndex,
int shapeIndex)
|
|
void |
setMaskStrokeWidth(Double strokeWidth,
int ROIIndex,
int shapeIndex)
|
|
void |
setMaskTheC(ome.xml.model.primitives.NonNegativeInteger theC,
int ROIIndex,
int shapeIndex)
|
|
void |
setMaskTheT(ome.xml.model.primitives.NonNegativeInteger theT,
int ROIIndex,
int shapeIndex)
|
|
void |
setMaskTheZ(ome.xml.model.primitives.NonNegativeInteger theZ,
int ROIIndex,
int shapeIndex)
|
|
void |
setMaskTransform(String transform,
int ROIIndex,
int shapeIndex)
|
|
void |
setMaskWidth(Double width,
int ROIIndex,
int shapeIndex)
|
|
void |
setMaskX(Double x,
int ROIIndex,
int shapeIndex)
|
|
void |
setMaskY(Double y,
int ROIIndex,
int shapeIndex)
|
|
void |
setMicrobeamManipulationDescription(String description,
int experimentIndex,
int microbeamManipulationIndex)
|
|
void |
setMicrobeamManipulationExperimenterRef(String experimenter,
int experimentIndex,
int microbeamManipulationIndex)
|
|
void |
setMicrobeamManipulationID(String id,
int experimentIndex,
int microbeamManipulationIndex)
|
|
void |
setMicrobeamManipulationLightSourceSettingsAttenuation(ome.xml.model.primitives.PercentFraction attenuation,
int experimentIndex,
int microbeamManipulationIndex,
int lightSourceSettingsIndex)
|
|
void |
setMicrobeamManipulationLightSourceSettingsID(String id,
int experimentIndex,
int microbeamManipulationIndex,
int lightSourceSettingsIndex)
|
|
void |
setMicrobeamManipulationLightSourceSettingsWavelength(ome.xml.model.primitives.PositiveInteger wavelength,
int experimentIndex,
int microbeamManipulationIndex,
int lightSourceSettingsIndex)
|
|
void |
setMicrobeamManipulationROIRef(String roi,
int experimentIndex,
int microbeamManipulationIndex,
int ROIRefIndex)
|
|
void |
setMicrobeamManipulationType(ome.xml.model.enums.MicrobeamManipulationType type,
int experimentIndex,
int microbeamManipulationIndex)
|
|
void |
setMicroscopeLotNumber(String lotNumber,
int instrumentIndex)
|
|
void |
setMicroscopeManufacturer(String manufacturer,
int instrumentIndex)
|
|
void |
setMicroscopeModel(String model,
int instrumentIndex)
|
|
void |
setMicroscopeSerialNumber(String serialNumber,
int instrumentIndex)
|
|
void |
setMicroscopeType(ome.xml.model.enums.MicroscopeType type,
int instrumentIndex)
|
|
void |
setModelProcessors(List<ModelProcessor> modelProcessors)
Sets the current set of model processors. |
|
void |
setObjectiveCalibratedMagnification(Double calibratedMagnification,
int instrumentIndex,
int objectiveIndex)
|
|
void |
setObjectiveCorrection(ome.xml.model.enums.Correction correction,
int instrumentIndex,
int objectiveIndex)
|
|
void |
setObjectiveID(String id,
int instrumentIndex,
int objectiveIndex)
|
|
void |
setObjectiveImmersion(ome.xml.model.enums.Immersion immersion,
int instrumentIndex,
int objectiveIndex)
|
|
void |
setObjectiveIris(Boolean iris,
int instrumentIndex,
int objectiveIndex)
|
|
void |
setObjectiveLensNA(Double lensNA,
int instrumentIndex,
int objectiveIndex)
|
|
void |
setObjectiveLotNumber(String lotNumber,
int instrumentIndex,
int objectiveIndex)
|
|
void |
setObjectiveManufacturer(String manufacturer,
int instrumentIndex,
int objectiveIndex)
|
|
void |
setObjectiveModel(String model,
int instrumentIndex,
int objectiveIndex)
|
|
void |
setObjectiveNominalMagnification(ome.xml.model.primitives.PositiveInteger nominalMagnification,
int instrumentIndex,
int objectiveIndex)
|
|
void |
setObjectiveSerialNumber(String serialNumber,
int instrumentIndex,
int objectiveIndex)
|
|
void |
setObjectiveWorkingDistance(Double workingDistance,
int instrumentIndex,
int objectiveIndex)
|
|
void |
setOTFBinaryFileFileName(String fileName,
int instrumentIndex,
int OTFIndex)
|
|
void |
setOTFBinaryFileMIMEType(String mimetype,
int instrumentIndex,
int OTFIndex)
|
|
void |
setOTFBinaryFileSize(ome.xml.model.primitives.NonNegativeLong size,
int instrumentIndex,
int OTFIndex)
|
|
void |
setOTFFilterSetRef(String filterSet,
int instrumentIndex,
int OTFIndex)
|
|
void |
setOTFID(String id,
int instrumentIndex,
int OTFIndex)
|
|
void |
setOTFObjectiveSettingsCorrectionCollar(Double correctionCollar,
int instrumentIndex,
int OTFIndex)
|
|
void |
setOTFObjectiveSettingsID(String id,
int instrumentIndex,
int OTFIndex)
|
|
void |
setOTFObjectiveSettingsMedium(ome.xml.model.enums.Medium medium,
int instrumentIndex,
int OTFIndex)
|
|
void |
setOTFObjectiveSettingsRefractiveIndex(Double refractiveIndex,
int instrumentIndex,
int OTFIndex)
|
|
void |
setOTFOpticalAxisAveraged(Boolean opticalAxisAveraged,
int instrumentIndex,
int OTFIndex)
|
|
void |
setOTFSizeX(ome.xml.model.primitives.PositiveInteger sizeX,
int instrumentIndex,
int OTFIndex)
|
|
void |
setOTFSizeY(ome.xml.model.primitives.PositiveInteger sizeY,
int instrumentIndex,
int OTFIndex)
|
|
void |
setOTFType(ome.xml.model.enums.PixelType type,
int instrumentIndex,
int OTFIndex)
|
|
void |
setPathDefinition(String definition,
int ROIIndex,
int shapeIndex)
|
|
void |
setPathDescription(String description,
int ROIIndex,
int shapeIndex)
|
|
void |
setPathFill(Integer fill,
int ROIIndex,
int shapeIndex)
|
|
void |
setPathFontSize(ome.xml.model.primitives.NonNegativeInteger fontSize,
int ROIIndex,
int shapeIndex)
|
|
void |
setPathID(String id,
int ROIIndex,
int shapeIndex)
|
|
void |
setPathLabel(String label,
int ROIIndex,
int shapeIndex)
|
|
void |
setPathName(String name,
int ROIIndex,
int shapeIndex)
|
|
void |
setPathStroke(Integer stroke,
int ROIIndex,
int shapeIndex)
|
|
void |
setPathStrokeDashArray(String strokeDashArray,
int ROIIndex,
int shapeIndex)
|
|
void |
setPathStrokeWidth(Double strokeWidth,
int ROIIndex,
int shapeIndex)
|
|
void |
setPathTheC(ome.xml.model.primitives.NonNegativeInteger theC,
int ROIIndex,
int shapeIndex)
|
|
void |
setPathTheT(ome.xml.model.primitives.NonNegativeInteger theT,
int ROIIndex,
int shapeIndex)
|
|
void |
setPathTheZ(ome.xml.model.primitives.NonNegativeInteger theZ,
int ROIIndex,
int shapeIndex)
|
|
void |
setPathTransform(String transform,
int ROIIndex,
int shapeIndex)
|
|
void |
setPixelsAnnotationRef(String annotation,
int imageIndex,
int annotationRefIndex)
|
|
void |
setPixelsBinDataBigEndian(Boolean bigEndian,
int imageIndex,
int binDataIndex)
|
|
void |
setPixelsDimensionOrder(ome.xml.model.enums.DimensionOrder dimensionOrder,
int imageIndex)
|
|
void |
setPixelsID(String id,
int imageIndex)
|
|
void |
setPixelsParams(long pixelsId,
int series)
Sets extended the properties on a pixel set. |
|
void |
setPixelsPhysicalSizeX(ome.xml.model.primitives.PositiveFloat physicalSizeX,
int imageIndex)
|
|
void |
setPixelsPhysicalSizeY(ome.xml.model.primitives.PositiveFloat physicalSizeY,
int imageIndex)
|
|
void |
setPixelsPhysicalSizeZ(ome.xml.model.primitives.PositiveFloat physicalSizeZ,
int imageIndex)
|
|
void |
setPixelsSizeC(ome.xml.model.primitives.PositiveInteger sizeC,
int imageIndex)
|
|
void |
setPixelsSizeT(ome.xml.model.primitives.PositiveInteger sizeT,
int imageIndex)
|
|
void |
setPixelsSizeX(ome.xml.model.primitives.PositiveInteger sizeX,
int imageIndex)
|
|
void |
setPixelsSizeY(ome.xml.model.primitives.PositiveInteger sizeY,
int imageIndex)
|
|
void |
setPixelsSizeZ(ome.xml.model.primitives.PositiveInteger sizeZ,
int imageIndex)
|
|
void |
setPixelsTimeIncrement(Double timeIncrement,
int imageIndex)
|
|
void |
setPixelsType(ome.xml.model.enums.PixelType type,
int imageIndex)
|
|
void |
setPlane(Long pixId,
byte[] arrayBuf,
int z,
int c,
int t)
Writes a plane to the server. |
|
void |
setPlaneAnnotationRef(String annotation,
int imageIndex,
int planeIndex,
int annotationRefIndex)
|
|
void |
setPlaneDeltaT(Double deltaT,
int imageIndex,
int planeIndex)
|
|
void |
setPlaneExposureTime(Double exposureTime,
int imageIndex,
int planeIndex)
|
|
void |
setPlaneHashSHA1(String hashSHA1,
int imageIndex,
int planeIndex)
|
|
void |
setPlanePositionX(Double positionX,
int imageIndex,
int planeIndex)
|
|
void |
setPlanePositionY(Double positionY,
int imageIndex,
int planeIndex)
|
|
void |
setPlanePositionZ(Double positionZ,
int imageIndex,
int planeIndex)
|
|
void |
setPlaneTheC(ome.xml.model.primitives.NonNegativeInteger theC,
int imageIndex,
int planeIndex)
|
|
void |
setPlaneTheT(ome.xml.model.primitives.NonNegativeInteger theT,
int imageIndex,
int planeIndex)
|
|
void |
setPlaneTheZ(ome.xml.model.primitives.NonNegativeInteger theZ,
int imageIndex,
int planeIndex)
|
|
void |
setPlateAcquisitionAnnotationRef(String annotation,
int plateIndex,
int plateAcquisitionIndex,
int annotationRefIndex)
|
|
void |
setPlateAcquisitionDescription(String description,
int plateIndex,
int plateAcquisitionIndex)
|
|
void |
setPlateAcquisitionEndTime(String endTime,
int plateIndex,
int plateAcquisitionIndex)
|
|
void |
setPlateAcquisitionID(String id,
int plateIndex,
int plateAcquisitionIndex)
|
|
void |
setPlateAcquisitionMaximumFieldCount(ome.xml.model.primitives.PositiveInteger maximumFieldCount,
int plateIndex,
int plateAcquisitionIndex)
|
|
void |
setPlateAcquisitionName(String name,
int plateIndex,
int plateAcquisitionIndex)
|
|
void |
setPlateAcquisitionStartTime(String startTime,
int plateIndex,
int plateAcquisitionIndex)
|
|
void |
setPlateAcquisitionWellSampleRef(String wellSample,
int plateIndex,
int plateAcquisitionIndex,
int wellSampleRefIndex)
|
|
void |
setPlateAnnotationRef(String annotation,
int plateIndex,
int annotationRefIndex)
|
|
void |
setPlateColumnNamingConvention(ome.xml.model.enums.NamingConvention columnNamingConvention,
int plateIndex)
|
|
void |
setPlateColumns(ome.xml.model.primitives.PositiveInteger columns,
int plateIndex)
|
|
void |
setPlateDescription(String description,
int plateIndex)
|
|
void |
setPlateExternalIdentifier(String externalIdentifier,
int plateIndex)
|
|
void |
setPlateID(String id,
int plateIndex)
|
|
void |
setPlateName(String name,
int plateIndex)
|
|
void |
setPlateRowNamingConvention(ome.xml.model.enums.NamingConvention rowNamingConvention,
int plateIndex)
|
|
void |
setPlateRows(ome.xml.model.primitives.PositiveInteger rows,
int plateIndex)
|
|
void |
setPlateScreenRef(String screen,
int plateIndex,
int screenRefIndex)
|
|
void |
setPlateStatus(String status,
int plateIndex)
|
|
void |
setPlateWellOriginX(Double wellOriginX,
int plateIndex)
|
|
void |
setPlateWellOriginY(Double wellOriginY,
int plateIndex)
|
|
void |
setPointDescription(String description,
int ROIIndex,
int shapeIndex)
|
|
void |
setPointFill(Integer fill,
int ROIIndex,
int shapeIndex)
|
|
void |
setPointFontSize(ome.xml.model.primitives.NonNegativeInteger fontSize,
int ROIIndex,
int shapeIndex)
|
|
void |
setPointID(String id,
int ROIIndex,
int shapeIndex)
|
|
void |
setPointLabel(String label,
int ROIIndex,
int shapeIndex)
|
|
void |
setPointName(String name,
int ROIIndex,
int shapeIndex)
|
|
void |
setPointStroke(Integer stroke,
int ROIIndex,
int shapeIndex)
|
|
void |
setPointStrokeDashArray(String strokeDashArray,
int ROIIndex,
int shapeIndex)
|
|
void |
setPointStrokeWidth(Double strokeWidth,
int ROIIndex,
int shapeIndex)
|
|
void |
setPointTheC(ome.xml.model.primitives.NonNegativeInteger theC,
int ROIIndex,
int shapeIndex)
|
|
void |
setPointTheT(ome.xml.model.primitives.NonNegativeInteger theT,
int ROIIndex,
int shapeIndex)
|
|
void |
setPointTheZ(ome.xml.model.primitives.NonNegativeInteger theZ,
int ROIIndex,
int shapeIndex)
|
|
void |
setPointTransform(String transform,
int ROIIndex,
int shapeIndex)
|
|
void |
setPointX(Double x,
int ROIIndex,
int shapeIndex)
|
|
void |
setPointY(Double y,
int ROIIndex,
int shapeIndex)
|
|
void |
setPolylineClosed(Boolean closed,
int ROIIndex,
int shapeIndex)
|
|
void |
setPolylineDescription(String description,
int ROIIndex,
int shapeIndex)
|
|
void |
setPolylineFill(Integer fill,
int ROIIndex,
int shapeIndex)
|
|
void |
setPolylineFontSize(ome.xml.model.primitives.NonNegativeInteger fontSize,
int ROIIndex,
int shapeIndex)
|
|
void |
setPolylineID(String id,
int ROIIndex,
int shapeIndex)
|
|
void |
setPolylineLabel(String label,
int ROIIndex,
int shapeIndex)
|
|
void |
setPolylineName(String name,
int ROIIndex,
int shapeIndex)
|
|
void |
setPolylinePoints(String points,
int ROIIndex,
int shapeIndex)
|
|
void |
setPolylineStroke(Integer stroke,
int ROIIndex,
int shapeIndex)
|
|
void |
setPolylineStrokeDashArray(String strokeDashArray,
int ROIIndex,
int shapeIndex)
|
|
void |
setPolylineStrokeWidth(Double strokeWidth,
int ROIIndex,
int shapeIndex)
|
|
void |
setPolylineTheC(ome.xml.model.primitives.NonNegativeInteger theC,
int ROIIndex,
int shapeIndex)
|
|
void |
setPolylineTheT(ome.xml.model.primitives.NonNegativeInteger theT,
int ROIIndex,
int shapeIndex)
|
|
void |
setPolylineTheZ(ome.xml.model.primitives.NonNegativeInteger theZ,
int ROIIndex,
int shapeIndex)
|
|
void |
setPolylineTransform(String transform,
int ROIIndex,
int shapeIndex)
|
|
void |
setProjectAnnotationRef(String annotation,
int projectIndex,
int annotationRefIndex)
|
|
void |
setProjectDescription(String description,
int projectIndex)
|
|
void |
setProjectExperimenterRef(String experimenter,
int projectIndex)
|
|
void |
setProjectGroupRef(String group,
int projectIndex)
|
|
void |
setProjectID(String id,
int projectIndex)
|
|
void |
setProjectName(String name,
int projectIndex)
|
|
void |
setReader(loci.formats.IFormatReader reader)
Sets the Bio-Formats reader that will be used to populate the container store. |
|
void |
setReagentAnnotationRef(String annotation,
int screenIndex,
int reagentIndex,
int annotationRefIndex)
|
|
void |
setReagentDescription(String description,
int screenIndex,
int reagentIndex)
|
|
void |
setReagentID(String id,
int screenIndex,
int reagentIndex)
|
|
void |
setReagentName(String name,
int screenIndex,
int reagentIndex)
|
|
void |
setReagentReagentIdentifier(String reagentIdentifier,
int screenIndex,
int reagentIndex)
|
|
void |
setRectangleDescription(String description,
int ROIIndex,
int shapeIndex)
|
|
void |
setRectangleFill(Integer fill,
int ROIIndex,
int shapeIndex)
|
|
void |
setRectangleFontSize(ome.xml.model.primitives.NonNegativeInteger fontSize,
int ROIIndex,
int shapeIndex)
|
|
void |
setRectangleHeight(Double height,
int ROIIndex,
int shapeIndex)
|
|
void |
setRectangleID(String id,
int ROIIndex,
int shapeIndex)
|
|
void |
setRectangleLabel(String label,
int ROIIndex,
int shapeIndex)
|
|
void |
setRectangleName(String name,
int ROIIndex,
int shapeIndex)
|
|
void |
setRectangleStroke(Integer stroke,
int ROIIndex,
int shapeIndex)
|
|
void |
setRectangleStrokeDashArray(String strokeDashArray,
int ROIIndex,
int shapeIndex)
|
|
void |
setRectangleStrokeWidth(Double strokeWidth,
int ROIIndex,
int shapeIndex)
|
|
void |
setRectangleTheC(ome.xml.model.primitives.NonNegativeInteger theC,
int ROIIndex,
int shapeIndex)
|
|
void |
setRectangleTheT(ome.xml.model.primitives.NonNegativeInteger theT,
int ROIIndex,
int shapeIndex)
|
|
void |
setRectangleTheZ(ome.xml.model.primitives.NonNegativeInteger theZ,
int ROIIndex,
int shapeIndex)
|
|
void |
setRectangleTransform(String transform,
int ROIIndex,
int shapeIndex)
|
|
void |
setRectangleWidth(Double width,
int ROIIndex,
int shapeIndex)
|
|
void |
setRectangleX(Double x,
int ROIIndex,
int shapeIndex)
|
|
void |
setRectangleY(Double y,
int ROIIndex,
int shapeIndex)
|
|
void |
setReferenceStringCache(Map<String,String[]> referenceStringCache)
Sets the string based reference cache for this container store. |
|
void |
setROIAnnotationRef(String annotation,
int ROIIndex,
int annotationRefIndex)
|
|
void |
setROIDescription(String description,
int ROIIndex)
|
|
void |
setROIID(String id,
int ROIIndex)
|
|
void |
setROIName(String name,
int ROIIndex)
|
|
void |
setROINamespace(String namespace,
int ROIIndex)
|
|
void |
setRoot(Object root)
|
|
void |
setScreenAnnotationRef(String annotation,
int screenIndex,
int annotationRefIndex)
|
|
void |
setScreenDescription(String description,
int screenIndex)
|
|
void |
setScreenID(String id,
int screenIndex)
|
|
void |
setScreenName(String name,
int screenIndex)
|
|
void |
setScreenPlateRef(String plate,
int screenIndex,
int plateRefIndex)
|
|
void |
setScreenProtocolDescription(String protocolDescription,
int screenIndex)
|
|
void |
setScreenProtocolIdentifier(String protocolIdentifier,
int screenIndex)
|
|
void |
setScreenReagentSetDescription(String reagentSetDescription,
int screenIndex)
|
|
void |
setScreenReagentSetIdentifier(String reagentSetIdentifier,
int screenIndex)
|
|
void |
setScreenType(String type,
int screenIndex)
|
|
void |
setStageLabelName(String name,
int imageIndex)
|
|
void |
setStageLabelX(Double x,
int imageIndex)
|
|
void |
setStageLabelY(Double y,
int imageIndex)
|
|
void |
setStageLabelZ(Double z,
int imageIndex)
|
|
void |
setTagAnnotationAnnotationRef(String annotation,
int tagAnnotationIndex,
int annotationRefIndex)
|
|
void |
setTagAnnotationDescription(String description,
int tagAnnotationIndex)
|
|
void |
setTagAnnotationID(String id,
int tagAnnotationIndex)
|
|
void |
setTagAnnotationNamespace(String namespace,
int tagAnnotationIndex)
|
|
void |
setTagAnnotationValue(String value,
int tagAnnotationIndex)
|
|
void |
setTermAnnotationAnnotationRef(String annotation,
int termAnnotationIndex,
int annotationRefIndex)
|
|
void |
setTermAnnotationDescription(String description,
int termAnnotationIndex)
|
|
void |
setTermAnnotationID(String id,
int termAnnotationIndex)
|
|
void |
setTermAnnotationNamespace(String namespace,
int termAnnotationIndex)
|
|
void |
setTermAnnotationValue(String value,
int termAnnotationIndex)
|
|
void |
setTextDescription(String description,
int ROIIndex,
int shapeIndex)
|
|
void |
setTextFill(Integer fill,
int ROIIndex,
int shapeIndex)
|
|
void |
setTextFontSize(ome.xml.model.primitives.NonNegativeInteger fontSize,
int ROIIndex,
int shapeIndex)
|
|
void |
setTextID(String id,
int ROIIndex,
int shapeIndex)
|
|
void |
setTextLabel(String label,
int ROIIndex,
int shapeIndex)
|
|
void |
setTextName(String name,
int ROIIndex,
int shapeIndex)
|
|
void |
setTextStroke(Integer stroke,
int ROIIndex,
int shapeIndex)
|
|
void |
setTextStrokeDashArray(String strokeDashArray,
int ROIIndex,
int shapeIndex)
|
|
void |
setTextStrokeWidth(Double strokeWidth,
int ROIIndex,
int shapeIndex)
|
|
void |
setTextTheC(ome.xml.model.primitives.NonNegativeInteger theC,
int ROIIndex,
int shapeIndex)
|
|
void |
setTextTheT(ome.xml.model.primitives.NonNegativeInteger theT,
int ROIIndex,
int shapeIndex)
|
|
void |
setTextTheZ(ome.xml.model.primitives.NonNegativeInteger theZ,
int ROIIndex,
int shapeIndex)
|
|
void |
setTextTransform(String transform,
int ROIIndex,
int shapeIndex)
|
|
void |
setTextValue(String value,
int ROIIndex,
int shapeIndex)
|
|
void |
setTextX(Double x,
int ROIIndex,
int shapeIndex)
|
|
void |
setTextY(Double y,
int ROIIndex,
int shapeIndex)
|
|
void |
setTiffDataFirstC(ome.xml.model.primitives.NonNegativeInteger firstC,
int imageIndex,
int tiffDataIndex)
|
|
void |
setTiffDataFirstT(ome.xml.model.primitives.NonNegativeInteger firstT,
int imageIndex,
int tiffDataIndex)
|
|
void |
setTiffDataFirstZ(ome.xml.model.primitives.NonNegativeInteger firstZ,
int imageIndex,
int tiffDataIndex)
|
|
void |
setTiffDataIFD(ome.xml.model.primitives.NonNegativeInteger ifd,
int imageIndex,
int tiffDataIndex)
|
|
void |
setTiffDataPlaneCount(ome.xml.model.primitives.NonNegativeInteger planeCount,
int imageIndex,
int tiffDataIndex)
|
|
void |
setTile(Long pixId,
byte[] arrayBuf,
int z,
int c,
int t,
int x,
int y,
int w,
int h)
Writes a tile of pixels to the server. |
|
void |
setTimestampAnnotationAnnotationRef(String annotation,
int timestampAnnotationIndex,
int annotationRefIndex)
|
|
void |
setTimestampAnnotationDescription(String description,
int timestampAnnotationIndex)
|
|
void |
setTimestampAnnotationID(String id,
int timestampAnnotationIndex)
|
|
void |
setTimestampAnnotationNamespace(String namespace,
int timestampAnnotationIndex)
|
|
void |
setTimestampAnnotationValue(String value,
int timestampAnnotationIndex)
|
|
void |
setTransmittanceRangeCutIn(ome.xml.model.primitives.PositiveInteger cutIn,
int instrumentIndex,
int filterIndex)
|
|
void |
setTransmittanceRangeCutInTolerance(ome.xml.model.primitives.NonNegativeInteger cutInTolerance,
int instrumentIndex,
int filterIndex)
|
|
void |
setTransmittanceRangeCutOut(ome.xml.model.primitives.PositiveInteger cutOut,
int instrumentIndex,
int filterIndex)
|
|
void |
setTransmittanceRangeCutOutTolerance(ome.xml.model.primitives.NonNegativeInteger cutOutTolerance,
int instrumentIndex,
int filterIndex)
|
|
void |
setTransmittanceRangeTransmittance(ome.xml.model.primitives.PercentFraction transmittance,
int instrumentIndex,
int filterIndex)
|
|
void |
setUserSpecifiedAnnotations(List<omero.model.Annotation> annotations)
Sets the user specified image annotations. |
|
void |
setUserSpecifiedImageDescription(String description)
Sets the user specified image description. |
|
void |
setUserSpecifiedImageName(String name)
Sets the user specified image name. |
|
void |
setUserSpecifiedPhysicalPixelSizes(Double physicalSizeX,
Double physicalSizeY,
Double physicalSizeZ)
Sets the user specified physical pixel sizes. |
|
void |
setUserSpecifiedPlateDescription(String description)
Sets the user specified plate description. |
|
void |
setUserSpecifiedPlateName(String name)
Sets the user specified plate name. |
|
void |
setUserSpecifiedTarget(omero.model.IObject target)
Sets the user specified linkage target (usually a Dataset for Images and a Screen for Plates). |
|
void |
setUUID(String uuid)
|
|
void |
setUUIDFileName(String fileName,
int imageIndex,
int tiffDataIndex)
|
|
void |
setUUIDValue(String fileName,
int imageIndex,
int tiffDataIndex)
|
|
void |
setWellAnnotationRef(String annotation,
int plateIndex,
int wellIndex,
int annotationRefIndex)
|
|
void |
setWellColor(Integer color,
int plateIndex,
int wellIndex)
|
|
void |
setWellColumn(ome.xml.model.primitives.NonNegativeInteger column,
int plateIndex,
int wellIndex)
|
|
void |
setWellExternalDescription(String externalDescription,
int plateIndex,
int wellIndex)
|
|
void |
setWellExternalIdentifier(String externalIdentifier,
int plateIndex,
int wellIndex)
|
|
void |
setWellID(String id,
int plateIndex,
int wellIndex)
|
|
void |
setWellReagentRef(String reagent,
int plateIndex,
int wellIndex)
|
|
void |
setWellRow(ome.xml.model.primitives.NonNegativeInteger row,
int plateIndex,
int wellIndex)
|
|
void |
setWellSampleAnnotationRef(String annotation,
int plateIndex,
int wellIndex,
int wellSampleIndex,
int annotationRefIndex)
|
|
void |
setWellSampleID(String id,
int plateIndex,
int wellIndex,
int wellSampleIndex)
|
|
void |
setWellSampleImageRef(String image,
int plateIndex,
int wellIndex,
int wellSampleIndex)
|
|
void |
setWellSampleIndex(ome.xml.model.primitives.NonNegativeInteger index,
int plateIndex,
int wellIndex,
int wellSampleIndex)
|
|
void |
setWellSamplePositionX(Double positionX,
int plateIndex,
int wellIndex,
int wellSampleIndex)
|
|
void |
setWellSamplePositionY(Double positionY,
int plateIndex,
int wellIndex,
int wellSampleIndex)
|
|
void |
setWellSampleTimepoint(String timepoint,
int plateIndex,
int wellIndex,
int wellSampleIndex)
|
|
void |
setWellStatus(String status,
int plateIndex,
int wellIndex)
|
|
void |
setXMLAnnotationAnnotationRef(String annotation,
int XMLAnnotationIndex,
int annotationRefIndex)
|
|
void |
setXMLAnnotationDescription(String description,
int XMLAnnotationIndex)
|
|
void |
setXMLAnnotationID(String id,
int XMLAnnotationIndex)
|
|
void |
setXMLAnnotationNamespace(String namespace,
int XMLAnnotationIndex)
|
|
void |
setXMLAnnotationValue(String value,
int XMLAnnotationIndex)
|
|
omero.RBool |
toRType(Boolean value)
Transforms a Java type into the corresponding OMERO RType. |
|
omero.RDouble |
toRType(Double value)
Transforms a Java type into the corresponding OMERO RType. |
|
omero.RDouble |
toRType(Float value)
Transforms a Java type into the corresponding OMERO RType. |
|
omero.RInt |
toRType(Integer value)
Transforms a Java type into the corresponding OMERO RType. |
|
omero.RLong |
toRType(Long value)
Transforms a Java type into the corresponding OMERO RType. |
|
omero.RString |
toRType(ome.xml.model.enums.NamingConvention value)
Transforms a Java type into the corresponding OMERO RType. |
|
omero.RInt |
toRType(ome.xml.model.primitives.NonNegativeInteger value)
Transforms a Java type into the corresponding OMERO RType. |
|
omero.RLong |
toRType(ome.xml.model.primitives.NonNegativeLong value)
Transforms a Java type into the corresponding OMERO RType. |
|
omero.RDouble |
toRType(ome.xml.model.primitives.PercentFraction value)
Transforms a Java type into the corresponding OMERO RType. |
|
omero.RDouble |
toRType(ome.xml.model.primitives.PositiveFloat value)
Transforms a Java type into the corresponding OMERO RType. |
|
omero.RString |
toRType(String value)
Transforms a Java type into the corresponding OMERO RType. |
|
omero.RTime |
toRType(Timestamp value)
Transforms a Java type into the corresponding OMERO RType. |
|
void |
updatePixels(List<omero.model.Pixels> pixelsList)
Updates a list of Pixels. |
|
void |
writeFilesToFileStore(List<File> files,
Map<String,omero.model.OriginalFile> originalFileMap)
Writes binary original file data to the OMERO server. |
Methods inherited from class java.lang.Object |
---|
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Field Detail |
---|
public static final String OMERO_EMISSION_FILTER_SUFFIX
public static final String OMERO_EXCITATION_FILTER_SUFFIX
Constructor Detail |
---|
public OMEROMetadataStoreClient()
Method Detail |
---|
public ClientKeepAlive getKeepAlive()
public void logVersionInfo(String clientVersion) throws omero.ServerError
omero.ServerError
public omero.api.IQueryPrx getIQuery()
public void setEncryptedConnection(boolean encryptedConnection)
public boolean isEncryptedConnection()
public void initialize(omero.api.ServiceFactoryPrx serviceFactory) throws omero.ServerError
closeServices()
.
serviceFactory
- The factory. Mustn't be null
.
omero.ServerError
public void initialize(client c) throws omero.ServerError
closeServices()
.
c
- The client. Mustn't be null
.
omero.ServerError
public void initialize(String username, String password, String server, int port) throws Glacier2.CannotCreateSessionException, Glacier2.PermissionDeniedException, omero.ServerError
logout()
username
- User's omename.password
- User's password.server
- Server hostname.port
- Server port.
Glacier2.CannotCreateSessionException
- If there is a session error when
creating the OMERO Blitz client object.
Glacier2.PermissionDeniedException
- If there is a problem logging the user
in.
omero.ServerError
- If there is a critical error communicating with the
server.public void initialize(String username, String password, String server, int port, boolean isSecure) throws Glacier2.CannotCreateSessionException, Glacier2.PermissionDeniedException, omero.ServerError
logout()
username
- User's omename.password
- User's password.server
- Server hostname.port
- Server port.isSecure
- is this session secure
Glacier2.CannotCreateSessionException
- If there is a session error when
creating the OMERO Blitz client object.
Glacier2.PermissionDeniedException
- If there is a problem logging the user
in.
omero.ServerError
- If there is a critical error communicating with the
server.public void initialize(String username, String password, String server, int port, long group, boolean isSecure) throws Glacier2.CannotCreateSessionException, Glacier2.PermissionDeniedException, omero.ServerError
logout()
username
- User's omename.password
- User's password.server
- Server hostname.port
- Server port.group
- User's current group.isSecure
- is this session secure
Glacier2.CannotCreateSessionException
- If there is a session error when
creating the OMERO Blitz client object.
Glacier2.PermissionDeniedException
- If there is a problem logging the user
in.
omero.ServerError
- If there is a critical error communicating with the
server.public void initialize(String server, int port, String sessionKey) throws Glacier2.CannotCreateSessionException, Glacier2.PermissionDeniedException, omero.ServerError
logout()
server
- Server hostname.port
- Server port.sessionKey
- Bind session key.
Glacier2.CannotCreateSessionException
Glacier2.PermissionDeniedException
omero.ServerError
public void initialize(String server, int port, String sessionKey, boolean isSecure) throws Glacier2.CannotCreateSessionException, Glacier2.PermissionDeniedException, omero.ServerError
logout()
server
- Server hostname.port
- Server port.sessionKey
- Bind session key.
Glacier2.CannotCreateSessionException
Glacier2.PermissionDeniedException
omero.ServerError
public omero.api.ServiceFactoryPrx getServiceFactory()
public void ping()
public void setEnumerationProvider(EnumerationProvider enumProvider)
enumProvider
- Enumeration provider to use.public EnumerationProvider getEnumerationProvider()
public void setInstanceProvider(InstanceProvider instanceProvider)
enumProvider
- Enumeration provider to use.public InstanceProvider getInstanceProvider()
public omero.RInt toRType(Integer value)
value
- Java concrete type value.
null
if value
is
null
.public omero.RInt toRType(ome.xml.model.primitives.NonNegativeInteger value)
value
- Java concrete type value.
null
if value
is
null
.public omero.RLong toRType(ome.xml.model.primitives.NonNegativeLong value)
value
- Java concrete type value.
null
if value
is
null
.public omero.RDouble toRType(ome.xml.model.primitives.PositiveFloat value)
value
- Java concrete type value.
null
if value
is
null
.public omero.RDouble toRType(ome.xml.model.primitives.PercentFraction value)
value
- Java concrete type value.
null
if value
is
null
.public omero.RLong toRType(Long value)
value
- Java concrete type value.
null
if value
is
null
.public omero.RString toRType(String value)
value
- Java concrete type value.
null
if value
is
null
.public omero.RBool toRType(Boolean value)
value
- Java concrete type value.
null
if value
is
null
.public omero.RDouble toRType(Double value)
value
- Java concrete type value.
null
if value
is
null
.public omero.RDouble toRType(Float value)
value
- Java concrete type value.
null
if value
is
null
.public omero.RTime toRType(Timestamp value)
value
- Java concrete type value.
null
if value
is
null
.public omero.RString toRType(ome.xml.model.enums.NamingConvention value)
value
- Java concrete type value.
null
if value
is
null
.public void closeServices()
logout()
when initialized
via an client
or a ServiceFactoryPrx
instance.
initialize(client)
,
initialize(ServiceFactoryPrx)
public void logout()
client
or a ServiceFactoryPrx
instance. * @see
#initialize(client)
initialize(ServiceFactoryPrx)
,
closeServices()
public void prepare(Map<Integer,omero.model.Image> existingMetadata)
prepare()
is only valid for
a SINGLE importImage()
execution. Following
importImage()
the existing metadata map will be reset
regardless of success or failure.
existingMetadata
- Map of imageIndex or series vs. populated Image
source graph with the fetched objects defined above.public void createRoot()
createRoot
in interface loci.formats.meta.MetadataStore
public Object getRoot()
getRoot
in interface loci.formats.meta.MetadataStore
public loci.formats.IFormatReader getReader()
IObjectContainerStore
getReader
in interface IObjectContainerStore
public void setReader(loci.formats.IFormatReader reader)
IObjectContainerStore
setReader
in interface IObjectContainerStore
reader
- Bio-Formats reader.public List<omero.model.Annotation> getUserSpecifiedAnnotations()
IObjectContainerStore
getUserSpecifiedAnnotations
in interface IObjectContainerStore
public void setUserSpecifiedAnnotations(List<omero.model.Annotation> annotations)
IObjectContainerStore
setUserSpecifiedAnnotations
in interface IObjectContainerStore
annotations
- user specified annotationspublic String getUserSpecifiedPlateName()
IObjectContainerStore
getUserSpecifiedPlateName
in interface IObjectContainerStore
public void setUserSpecifiedPlateName(String name)
IObjectContainerStore
setUserSpecifiedPlateName
in interface IObjectContainerStore
name
- user specified plate namepublic String getUserSpecifiedPlateDescription()
IObjectContainerStore
getUserSpecifiedPlateDescription
in interface IObjectContainerStore
public void setUserSpecifiedPlateDescription(String description)
IObjectContainerStore
setUserSpecifiedPlateDescription
in interface IObjectContainerStore
public String getUserSpecifiedImageName()
IObjectContainerStore
getUserSpecifiedImageName
in interface IObjectContainerStore
public void setUserSpecifiedImageName(String name)
IObjectContainerStore
setUserSpecifiedImageName
in interface IObjectContainerStore
name
- user specified image namepublic String getUserSpecifiedImageDescription()
IObjectContainerStore
getUserSpecifiedImageDescription
in interface IObjectContainerStore
public void setUserSpecifiedImageDescription(String description)
IObjectContainerStore
setUserSpecifiedImageDescription
in interface IObjectContainerStore
public omero.model.IObject getUserSpecifiedTarget()
IObjectContainerStore
getUserSpecifiedTarget
in interface IObjectContainerStore
public void setUserSpecifiedTarget(omero.model.IObject target)
IObjectContainerStore
setUserSpecifiedTarget
in interface IObjectContainerStore
public Double[] getUserSpecifiedPhysicalPixelSizes()
IObjectContainerStore
getUserSpecifiedPhysicalPixelSizes
in interface IObjectContainerStore
null
for any one index states the user has not made a choice for the size
of that particular dimension.public void setUserSpecifiedPhysicalPixelSizes(Double physicalSizeX, Double physicalSizeY, Double physicalSizeZ)
IObjectContainerStore
null
states the original file physical size for that
dimension should be used.
setUserSpecifiedPhysicalPixelSizes
in interface IObjectContainerStore
physicalSizeX
- Physical pixel size width.physicalSizeY
- Physical pixel height.physicalSizeZ
- Physical pixel depth.public List<ModelProcessor> getModelProcessors()
public void setModelProcessors(List<ModelProcessor> modelProcessors)
modelProcessors
- List of model processors to use.public void removeModelProcessor(ModelProcessor processor)
processor
- Model processor to remove.public boolean addModelProcessor(ModelProcessor processor)
processor
- Model processor to add.
true
as specified by Collection.add(E)
.public Map<ome.util.LSID,omero.metadatastore.IObjectContainer> getContainerCache()
IObjectContainerStore
getContainerCache
in interface IObjectContainerStore
public Map<ome.util.LSID,List<ome.util.LSID>> getReferenceCache()
IObjectContainerStore
getReferenceCache
in interface IObjectContainerStore
public Map<Class<? extends omero.model.IObject>,Map<String,omero.metadatastore.IObjectContainer>> getAuthoritativeContainerCache()
IObjectContainerStore
getAuthoritativeContainerCache
in interface IObjectContainerStore
public void addReference(ome.util.LSID source, ome.util.LSID target)
addReference
in interface IObjectContainerStore
source
- Source LSID to add.target
- Target LSID to add.public Map<String,String[]> getReferenceStringCache()
IObjectContainerStore
getReferenceStringCache
in interface IObjectContainerStore
public void setReferenceStringCache(Map<String,String[]> referenceStringCache)
IObjectContainerStore
setReferenceStringCache
in interface IObjectContainerStore
referenceStringCache
- String based reference cache to use.public omero.model.IObject getSourceObject(ome.util.LSID LSID)
IObjectContainerStore
getSourceObject
in interface IObjectContainerStore
LSID
- LSID to retrieve a source object for.
public <T extends omero.model.IObject> List<T> getSourceObjects(Class<T> klass)
IObjectContainerStore
getSourceObjects
in interface IObjectContainerStore
klass
- Class to retrieve source objects for.
public boolean hasReference(ome.util.LSID source, ome.util.LSID target)
IObjectContainerStore
hasReference
in interface IObjectContainerStore
source
- LSID of the source object.target
- LSID of the target object.
true
if a reference exists, false
otherwise.public List<File> setArchiveScreeningDomain(boolean archive)
archive
- Whether or not the user requested the original files to
be archived.
public List<File> setArchive(boolean archive, boolean useMetadataFile)
archive
- Whether or not the user requested the original files to
be archived.useMetadataFile
- Whether or not to dump all metadata to a flat
file annotation on the server.
public List<String> getFilteredCompanionFiles()
getFilteredSeriesCompanionFiles()
public List<String> getFilteredSeriesCompanionFiles()
getFilteredCompanionFiles()
public void writeFilesToFileStore(List<File> files, Map<String,omero.model.OriginalFile> originalFileMap)
files
- Files to populate against an original file list.originalFileMap
- Map of absolute path against original file
objects that we are to populate.public void setPixelsParams(long pixelsId, int series)
pixelsId
- The pixels set identifier.series
- The series number to populate.public void setCurrentGroup(long groupID) throws omero.ServerError
groupID
- The id of the group.
Exception
- If an error occurred while trying to
retrieve data from OMERO service.
omero.ServerError
public Map<Long,String> mapUserGroups() throws omero.ServerError
omero.ServerError
public String getDefaultGroupName() throws omero.ServerError
omero.ServerError
public int getDefaultGroupLevel() throws omero.ServerError
omero.ServerError
public long getRepositorySpace()
public void postProcess()
saveToDB()
.
public List<omero.model.Pixels> saveToDB()
public List<omero.grid.InteractiveProcessorPrx> launchProcessing()
public <T extends omero.model.IObject> T getTarget(Class<T> klass, long id)
T
- klass
- id
-
public omero.model.Project getProject(long projectId)
projectId
-
public omero.model.Dataset addDataset(String datasetName, String datasetDescription, omero.model.Project project)
datasetName
- datasetDescription
- project
-
public long getExperimenterID()
public String getConfigValue(String key)
IConfig
service.
key
- Key for the string encoded value.
public List<omero.model.Screen> getScreens()
public List<omero.model.Project> getProjects()
public List<omero.model.Dataset> getDatasets(omero.model.Project p)
p
-
public List<omero.model.Dataset> getDatasetsWithoutProjects()
public omero.model.Project addProject(String projectName, String projectDescription)
projectName
- projectDescription
-
public omero.model.Screen addScreen(String screenName, String screenDescription)
screenName
- screenDescription
-
public void preparePixelsStore(List<Long> pixelsIds)
pixelsIds
- List of Pixels IDs we'll be populating.public void finalizePixelStore() throws omero.ServerError
omero.ServerError
ticket:5594
public int[] getTileSize(Long pixId) throws omero.ServerError
pixId
- Pixels set to write to.
omero.ServerError
- If there is an error writing this tile to the
server.public void setTile(Long pixId, byte[] arrayBuf, int z, int c, int t, int x, int y, int w, int h) throws omero.ServerError
pixId
- Pixels set to write to.arrayBuf
- Byte array containing all pixels for this plane.z
- Z offset within the Pixels set.c
- Channel offset within the Pixels set.t
- Timepoint offset within the Pixels set.x
- X offset of the tile.y
- Y offset of the tile.w
- Width of the tile.h
- Height of the tile.
omero.ServerError
- If there is an error writing this tile to the
server.setPlane(Long, byte[], int, int, int)
public void setPlane(Long pixId, byte[] arrayBuf, int z, int c, int t) throws omero.ServerError
pixId
- Pixels set to write to.arrayBuf
- Byte array containing all pixels for this plane.z
- Z offset within the Pixels set.c
- Channel offset within the Pixels set.t
- Timepoint offset within the Pixels set.
omero.ServerError
- If there is an error writing this plane to the
server.public void setChannelGlobalMinMax(int channel, double minimum, double maximum, int series)
setChannelGlobalMinMax
in interface loci.formats.meta.IMinMaxStore
public void updatePixels(List<omero.model.Pixels> pixelsList)
pixelsList
- List of Pixels to update.public static String byteArrayToHexString(byte[] in)
in
-
public void populateMinMax()
public void resetDefaultsAndGenerateThumbnails(List<Long> plateIds, List<Long> pixelsIds)
plateIds
- Set of Plate IDs to reset defaults and thumbnails for.pixelsIds
- Set of Pixels IDs to reset defaults and thumbnails for.public omero.metadatastore.IObjectContainer getIObjectContainer(Class<? extends omero.model.IObject> klass, LinkedHashMap<Index,Integer> indexes)
IObjectContainerStore
getIObjectContainer
in interface IObjectContainerStore
klass
- Class to retrieve a container for.indexes
- Indexes into the OME-XML data model.
public void removeIObjectContainer(ome.util.LSID lsid)
IObjectContainerStore
removeIObjectContainer
in interface IObjectContainerStore
lsid
- LSID of the container to remove.public List<omero.metadatastore.IObjectContainer> getIObjectContainers(Class<? extends omero.model.IObject> klass)
IObjectContainerStore
getIObjectContainers
in interface IObjectContainerStore
klass
- Class to retrieve containers for.
public int countCachedContainers(Class<? extends omero.model.IObject> klass, int... indexes)
IObjectContainerStore
countCachedContainers
in interface IObjectContainerStore
klass
- Class to count containers of.indexes
- Indexes to use in the container count. For example, if
klass
is Image
and indexes is
int[] { 0 };
only containers that have an LSID of type
Image
and a first index of 0
will be counted.
public int countCachedReferences(Class<? extends omero.model.IObject> source, Class<? extends omero.model.IObject> target)
IObjectContainerStore
countCachedReferences
in interface IObjectContainerStore
source
- Class of the source object. If null
it is
treated as a wild card, all references whose target match
target
will be counted.target
- Class of the target object. If null
it is
treated as a wild card, all references whose source match
source
will be counted.
public void setArcID(String id, int instrumentIndex, int lightSourceIndex)
setArcID
in interface loci.formats.meta.MetadataStore
public void setArcLotNumber(String lotNumber, int instrumentIndex, int lightSourceIndex)
setArcLotNumber
in interface loci.formats.meta.MetadataStore
public void setArcManufacturer(String manufacturer, int instrumentIndex, int lightSourceIndex)
setArcManufacturer
in interface loci.formats.meta.MetadataStore
public void setArcModel(String model, int instrumentIndex, int lightSourceIndex)
setArcModel
in interface loci.formats.meta.MetadataStore
public void setArcPower(Double power, int instrumentIndex, int lightSourceIndex)
setArcPower
in interface loci.formats.meta.MetadataStore
public void setArcSerialNumber(String serialNumber, int instrumentIndex, int lightSourceIndex)
setArcSerialNumber
in interface loci.formats.meta.MetadataStore
public void setArcType(ome.xml.model.enums.ArcType type, int instrumentIndex, int lightSourceIndex)
setArcType
in interface loci.formats.meta.MetadataStore
public void setBooleanAnnotationID(String id, int booleanAnnotationIndex)
setBooleanAnnotationID
in interface loci.formats.meta.MetadataStore
public void setBooleanAnnotationNamespace(String namespace, int booleanAnnotationIndex)
setBooleanAnnotationNamespace
in interface loci.formats.meta.MetadataStore
public void setBooleanAnnotationValue(Boolean value, int booleanAnnotationIndex)
setBooleanAnnotationValue
in interface loci.formats.meta.MetadataStore
public void setBinaryOnlyUUID(String uuid)
setBinaryOnlyUUID
in interface loci.formats.meta.MetadataStore
public void setBinaryOnlyMetadataFile(String metadataFile)
setBinaryOnlyMetadataFile
in interface loci.formats.meta.MetadataStore
public omero.model.Channel getChannel(int imageIndex, int channelIndex)
public void setChannelID(String id, int imageIndex, int channelIndex)
setChannelID
in interface loci.formats.meta.MetadataStore
public void setChannelAcquisitionMode(ome.xml.model.enums.AcquisitionMode acquisitionMode, int imageIndex, int channelIndex)
setChannelAcquisitionMode
in interface loci.formats.meta.MetadataStore
public void setChannelColor(Integer color, int imageIndex, int channelIndex)
setChannelColor
in interface loci.formats.meta.MetadataStore
public void setChannelContrastMethod(ome.xml.model.enums.ContrastMethod contrastMethod, int imageIndex, int channelIndex)
setChannelContrastMethod
in interface loci.formats.meta.MetadataStore
public void setChannelEmissionWavelength(ome.xml.model.primitives.PositiveInteger emissionWavelength, int imageIndex, int channelIndex)
setChannelEmissionWavelength
in interface loci.formats.meta.MetadataStore
public void setChannelExcitationWavelength(ome.xml.model.primitives.PositiveInteger excitationWavelength, int imageIndex, int channelIndex)
setChannelExcitationWavelength
in interface loci.formats.meta.MetadataStore
MetadataStore.setChannelExcitationWavelength(ome.xml.model.primitives.PositiveInteger, int, int)
public void setChannelFilterSetRef(String filterSet, int imageIndex, int channelIndex)
setChannelFilterSetRef
in interface loci.formats.meta.MetadataStore
public void setChannelFluor(String fluor, int imageIndex, int channelIndex)
setChannelFluor
in interface loci.formats.meta.MetadataStore
public void setChannelIlluminationType(ome.xml.model.enums.IlluminationType illuminationType, int imageIndex, int channelIndex)
setChannelIlluminationType
in interface loci.formats.meta.MetadataStore
public void setChannelNDFilter(Double ndfilter, int imageIndex, int channelIndex)
setChannelNDFilter
in interface loci.formats.meta.MetadataStore
public void setChannelName(String name, int imageIndex, int channelIndex)
setChannelName
in interface loci.formats.meta.MetadataStore
public void setChannelOTFRef(String otf, int imageIndex, int channelIndex)
setChannelOTFRef
in interface loci.formats.meta.MetadataStore
public void setChannelPinholeSize(Double pinholeSize, int imageIndex, int channelIndex)
setChannelPinholeSize
in interface loci.formats.meta.MetadataStore
public void setChannelPockelCellSetting(Integer pockelCellSetting, int imageIndex, int channelIndex)
setChannelPockelCellSetting
in interface loci.formats.meta.MetadataStore
public void setChannelSamplesPerPixel(ome.xml.model.primitives.PositiveInteger samplesPerPixel, int imageIndex, int channelIndex)
setChannelSamplesPerPixel
in interface loci.formats.meta.MetadataStore
public void setChannelAnnotationRef(String annotation, int imageIndex, int channelIndex, int annotationRefIndex)
setChannelAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setChannelLightSourceSettingsID(String id, int imageIndex, int channelIndex)
setChannelLightSourceSettingsID
in interface loci.formats.meta.MetadataStore
public void setChannelLightSourceSettingsAttenuation(ome.xml.model.primitives.PercentFraction attenuation, int imageIndex, int channelIndex)
setChannelLightSourceSettingsAttenuation
in interface loci.formats.meta.MetadataStore
public void setChannelLightSourceSettingsWavelength(ome.xml.model.primitives.PositiveInteger wavelength, int imageIndex, int channelIndex)
setChannelLightSourceSettingsWavelength
in interface loci.formats.meta.MetadataStore
public void setDatasetID(String id, int datasetIndex)
setDatasetID
in interface loci.formats.meta.MetadataStore
public void setDatasetAnnotationRef(String annotation, int datasetIndex, int annotationRefIndex)
setDatasetAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setDatasetDescription(String description, int datasetIndex)
setDatasetDescription
in interface loci.formats.meta.MetadataStore
public void setDatasetExperimenterRef(String experimenter, int datasetIndex)
setDatasetExperimenterRef
in interface loci.formats.meta.MetadataStore
public void setDatasetGroupRef(String group, int datasetIndex)
setDatasetGroupRef
in interface loci.formats.meta.MetadataStore
public void setDatasetName(String name, int datasetIndex)
setDatasetName
in interface loci.formats.meta.MetadataStore
public void setDatasetProjectRef(String project, int datasetIndex, int projectRefIndex)
setDatasetProjectRef
in interface loci.formats.meta.MetadataStore
public omero.model.Detector getDetector(int instrumentIndex, int detectorIndex)
instrumentIndex
- detectorIndex
-
public void setDetectorID(String id, int instrumentIndex, int detectorIndex)
setDetectorID
in interface loci.formats.meta.MetadataStore
public void setDetectorAmplificationGain(Double amplificationGain, int instrumentIndex, int detectorIndex)
setDetectorAmplificationGain
in interface loci.formats.meta.MetadataStore
public void setDetectorGain(Double gain, int instrumentIndex, int detectorIndex)
setDetectorGain
in interface loci.formats.meta.MetadataStore
public void setDetectorLotNumber(String lotNumber, int instrumentIndex, int detectorIndex)
setDetectorLotNumber
in interface loci.formats.meta.MetadataStore
public void setDetectorManufacturer(String manufacturer, int instrumentIndex, int detectorIndex)
setDetectorManufacturer
in interface loci.formats.meta.MetadataStore
public void setDetectorModel(String model, int instrumentIndex, int detectorIndex)
setDetectorModel
in interface loci.formats.meta.MetadataStore
public void setDetectorOffset(Double offset, int instrumentIndex, int detectorIndex)
setDetectorOffset
in interface loci.formats.meta.MetadataStore
public void setDetectorSerialNumber(String serialNumber, int instrumentIndex, int detectorIndex)
setDetectorSerialNumber
in interface loci.formats.meta.MetadataStore
public void setDetectorType(ome.xml.model.enums.DetectorType type, int instrumentIndex, int detectorIndex)
setDetectorType
in interface loci.formats.meta.MetadataStore
public void setDetectorVoltage(Double voltage, int instrumentIndex, int detectorIndex)
setDetectorVoltage
in interface loci.formats.meta.MetadataStore
public void setDetectorZoom(Double zoom, int instrumentIndex, int detectorIndex)
setDetectorZoom
in interface loci.formats.meta.MetadataStore
public void setDetectorSettingsID(String id, int imageIndex, int channelIndex)
setDetectorSettingsID
in interface loci.formats.meta.MetadataStore
public void setDetectorSettingsBinning(ome.xml.model.enums.Binning binning, int imageIndex, int channelIndex)
setDetectorSettingsBinning
in interface loci.formats.meta.MetadataStore
public void setDetectorSettingsGain(Double gain, int imageIndex, int channelIndex)
setDetectorSettingsGain
in interface loci.formats.meta.MetadataStore
public void setDetectorSettingsOffset(Double offset, int imageIndex, int channelIndex)
setDetectorSettingsOffset
in interface loci.formats.meta.MetadataStore
public void setDetectorSettingsReadOutRate(Double readOutRate, int imageIndex, int channelIndex)
setDetectorSettingsReadOutRate
in interface loci.formats.meta.MetadataStore
public void setDetectorSettingsVoltage(Double voltage, int imageIndex, int channelIndex)
setDetectorSettingsVoltage
in interface loci.formats.meta.MetadataStore
public void setDichroicID(String id, int instrumentIndex, int dichroicIndex)
setDichroicID
in interface loci.formats.meta.MetadataStore
public void setDichroicLotNumber(String lotNumber, int instrumentIndex, int dichroicIndex)
setDichroicLotNumber
in interface loci.formats.meta.MetadataStore
public void setDichroicManufacturer(String manufacturer, int instrumentIndex, int dichroicIndex)
setDichroicManufacturer
in interface loci.formats.meta.MetadataStore
public void setDichroicModel(String model, int instrumentIndex, int dichroicIndex)
setDichroicModel
in interface loci.formats.meta.MetadataStore
public void setDichroicSerialNumber(String serialNumber, int instrumentIndex, int dichroicIndex)
setDichroicSerialNumber
in interface loci.formats.meta.MetadataStore
public void setDoubleAnnotationID(String id, int doubleAnnotationIndex)
setDoubleAnnotationID
in interface loci.formats.meta.MetadataStore
public void setDoubleAnnotationNamespace(String namespace, int doubleAnnotationIndex)
setDoubleAnnotationNamespace
in interface loci.formats.meta.MetadataStore
public void setDoubleAnnotationValue(Double value, int doubleAnnotationIndex)
setDoubleAnnotationValue
in interface loci.formats.meta.MetadataStore
public void setEllipseID(String id, int ROIIndex, int shapeIndex)
setEllipseID
in interface loci.formats.meta.MetadataStore
public void setEllipseDescription(String description, int ROIIndex, int shapeIndex)
setEllipseDescription
in interface loci.formats.meta.MetadataStore
public void setEllipseFill(Integer fill, int ROIIndex, int shapeIndex)
setEllipseFill
in interface loci.formats.meta.MetadataStore
public void setEllipseFontSize(ome.xml.model.primitives.NonNegativeInteger fontSize, int ROIIndex, int shapeIndex)
setEllipseFontSize
in interface loci.formats.meta.MetadataStore
public void setEllipseLabel(String label, int ROIIndex, int shapeIndex)
setEllipseLabel
in interface loci.formats.meta.MetadataStore
public void setEllipseName(String name, int ROIIndex, int shapeIndex)
setEllipseName
in interface loci.formats.meta.MetadataStore
public void setEllipseRadiusX(Double radiusX, int ROIIndex, int shapeIndex)
setEllipseRadiusX
in interface loci.formats.meta.MetadataStore
public void setEllipseRadiusY(Double radiusY, int ROIIndex, int shapeIndex)
setEllipseRadiusY
in interface loci.formats.meta.MetadataStore
public void setEllipseStroke(Integer stroke, int ROIIndex, int shapeIndex)
setEllipseStroke
in interface loci.formats.meta.MetadataStore
public void setEllipseStrokeDashArray(String strokeDashArray, int ROIIndex, int shapeIndex)
setEllipseStrokeDashArray
in interface loci.formats.meta.MetadataStore
public void setEllipseStrokeWidth(Double strokeWidth, int ROIIndex, int shapeIndex)
setEllipseStrokeWidth
in interface loci.formats.meta.MetadataStore
public void setEllipseTheC(ome.xml.model.primitives.NonNegativeInteger theC, int ROIIndex, int shapeIndex)
setEllipseTheC
in interface loci.formats.meta.MetadataStore
public void setEllipseTheT(ome.xml.model.primitives.NonNegativeInteger theT, int ROIIndex, int shapeIndex)
setEllipseTheT
in interface loci.formats.meta.MetadataStore
public void setEllipseTheZ(ome.xml.model.primitives.NonNegativeInteger theZ, int ROIIndex, int shapeIndex)
setEllipseTheZ
in interface loci.formats.meta.MetadataStore
public void setEllipseTransform(String transform, int ROIIndex, int shapeIndex)
setEllipseTransform
in interface loci.formats.meta.MetadataStore
public void setEllipseX(Double x, int ROIIndex, int shapeIndex)
setEllipseX
in interface loci.formats.meta.MetadataStore
public void setEllipseY(Double y, int ROIIndex, int shapeIndex)
setEllipseY
in interface loci.formats.meta.MetadataStore
public void setExperimentID(String id, int experimentIndex)
setExperimentID
in interface loci.formats.meta.MetadataStore
public void setExperimentDescription(String description, int experimentIndex)
setExperimentDescription
in interface loci.formats.meta.MetadataStore
public void setExperimentExperimenterRef(String experimenter, int experimentIndex)
setExperimentExperimenterRef
in interface loci.formats.meta.MetadataStore
public void setExperimentType(ome.xml.model.enums.ExperimentType type, int experimentIndex)
setExperimentType
in interface loci.formats.meta.MetadataStore
public void setExperimenterID(String id, int experimenterIndex)
setExperimenterID
in interface loci.formats.meta.MetadataStore
public void setExperimenterAnnotationRef(String annotation, int experimenterIndex, int annotationRefIndex)
setExperimenterAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setExperimenterDisplayName(String displayName, int experimenterIndex)
setExperimenterDisplayName
in interface loci.formats.meta.MetadataStore
public void setExperimenterEmail(String email, int experimenterIndex)
setExperimenterEmail
in interface loci.formats.meta.MetadataStore
public void setExperimenterFirstName(String firstName, int experimenterIndex)
setExperimenterFirstName
in interface loci.formats.meta.MetadataStore
public void setExperimenterGroupRef(String group, int experimenterIndex, int groupRefIndex)
setExperimenterGroupRef
in interface loci.formats.meta.MetadataStore
public void setExperimenterInstitution(String institution, int experimenterIndex)
setExperimenterInstitution
in interface loci.formats.meta.MetadataStore
public void setExperimenterLastName(String lastName, int experimenterIndex)
setExperimenterLastName
in interface loci.formats.meta.MetadataStore
public void setExperimenterMiddleName(String middleName, int experimenterIndex)
setExperimenterMiddleName
in interface loci.formats.meta.MetadataStore
public void setExperimenterUserName(String userName, int experimenterIndex)
setExperimenterUserName
in interface loci.formats.meta.MetadataStore
public omero.model.Filament getFilament(int instrumentIndex, int lightSourceIndex)
public void setFilamentID(String id, int instrumentIndex, int lightSourceIndex)
setFilamentID
in interface loci.formats.meta.MetadataStore
public void setFilamentLotNumber(String lotNumber, int instrumentIndex, int lightSourceIndex)
setFilamentLotNumber
in interface loci.formats.meta.MetadataStore
public void setFilamentManufacturer(String manufacturer, int instrumentIndex, int lightSourceIndex)
setFilamentManufacturer
in interface loci.formats.meta.MetadataStore
public void setFilamentModel(String model, int instrumentIndex, int lightSourceIndex)
setFilamentModel
in interface loci.formats.meta.MetadataStore
public void setFilamentPower(Double power, int instrumentIndex, int lightSourceIndex)
setFilamentPower
in interface loci.formats.meta.MetadataStore
public void setFilamentSerialNumber(String serialNumber, int instrumentIndex, int lightSourceIndex)
setFilamentSerialNumber
in interface loci.formats.meta.MetadataStore
public void setFilamentType(ome.xml.model.enums.FilamentType type, int instrumentIndex, int lightSourceIndex)
setFilamentType
in interface loci.formats.meta.MetadataStore
public void setFileAnnotationID(String id, int fileAnnotationIndex)
setFileAnnotationID
in interface loci.formats.meta.MetadataStore
public void setFileAnnotationNamespace(String namespace, int fileAnnotationIndex)
setFileAnnotationNamespace
in interface loci.formats.meta.MetadataStore
public void setFileAnnotationBinaryFileFileName(String fileName, int fileAnnotationIndex)
setFileAnnotationBinaryFileFileName
in interface loci.formats.meta.MetadataStore
public void setFileAnnotationBinaryFileMIMEType(String mimetype, int fileAnnotationIndex)
setFileAnnotationBinaryFileMIMEType
in interface loci.formats.meta.MetadataStore
public void setFileAnnotationBinaryFileSize(ome.xml.model.primitives.NonNegativeLong size, int fileAnnotationIndex)
setFileAnnotationBinaryFileSize
in interface loci.formats.meta.MetadataStore
public void setFilterID(String id, int instrumentIndex, int filterIndex)
setFilterID
in interface loci.formats.meta.MetadataStore
public void setFilterFilterWheel(String filterWheel, int instrumentIndex, int filterIndex)
setFilterFilterWheel
in interface loci.formats.meta.MetadataStore
public void setFilterLotNumber(String lotNumber, int instrumentIndex, int filterIndex)
setFilterLotNumber
in interface loci.formats.meta.MetadataStore
public void setFilterManufacturer(String manufacturer, int instrumentIndex, int filterIndex)
setFilterManufacturer
in interface loci.formats.meta.MetadataStore
public void setFilterModel(String model, int instrumentIndex, int filterIndex)
setFilterModel
in interface loci.formats.meta.MetadataStore
public void setFilterSerialNumber(String serialNumber, int instrumentIndex, int filterIndex)
setFilterSerialNumber
in interface loci.formats.meta.MetadataStore
public void setFilterType(ome.xml.model.enums.FilterType type, int instrumentIndex, int filterIndex)
setFilterType
in interface loci.formats.meta.MetadataStore
public omero.model.FilterSet getFilterSet(int instrumentIndex, int filterSetIndex)
public void setFilterSetID(String id, int instrumentIndex, int filterSetIndex)
setFilterSetID
in interface loci.formats.meta.MetadataStore
public void setFilterSetDichroicRef(String dichroic, int instrumentIndex, int filterSetIndex)
setFilterSetDichroicRef
in interface loci.formats.meta.MetadataStore
public void setFilterSetEmissionFilterRef(String emissionFilter, int instrumentIndex, int filterSetIndex, int emissionFilterRefIndex)
setFilterSetEmissionFilterRef
in interface loci.formats.meta.MetadataStore
public void setFilterSetExcitationFilterRef(String excitationFilter, int instrumentIndex, int filterSetIndex, int excitationFilterRefIndex)
setFilterSetExcitationFilterRef
in interface loci.formats.meta.MetadataStore
public void setFilterSetLotNumber(String lotNumber, int instrumentIndex, int filterSetIndex)
setFilterSetLotNumber
in interface loci.formats.meta.MetadataStore
public void setFilterSetManufacturer(String manufacturer, int instrumentIndex, int filterSetIndex)
setFilterSetManufacturer
in interface loci.formats.meta.MetadataStore
public void setFilterSetModel(String model, int instrumentIndex, int filterSetIndex)
setFilterSetModel
in interface loci.formats.meta.MetadataStore
public void setFilterSetSerialNumber(String serialNumber, int instrumentIndex, int filterSetIndex)
setFilterSetSerialNumber
in interface loci.formats.meta.MetadataStore
public void setGroupID(String id, int groupIndex)
setGroupID
in interface loci.formats.meta.MetadataStore
public void setGroupContact(String contact, int groupIndex)
setGroupContact
in interface loci.formats.meta.MetadataStore
public void setGroupDescription(String description, int groupIndex)
setGroupDescription
in interface loci.formats.meta.MetadataStore
public void setGroupLeader(String leader, int groupIndex)
setGroupLeader
in interface loci.formats.meta.MetadataStore
public void setGroupName(String name, int groupIndex)
setGroupName
in interface loci.formats.meta.MetadataStore
public void setImageID(String id, int imageIndex)
setImageID
in interface loci.formats.meta.MetadataStore
public void setImageAcquiredDate(String acquiredDate, int imageIndex)
setImageAcquiredDate
in interface loci.formats.meta.MetadataStore
public void setImageAnnotationRef(String annotation, int imageIndex, int annotationRefIndex)
setImageAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setImageDatasetRef(String dataset, int imageIndex, int datasetRefIndex)
setImageDatasetRef
in interface loci.formats.meta.MetadataStore
public void setImageDescription(String description, int imageIndex)
setImageDescription
in interface loci.formats.meta.MetadataStore
public void setImageExperimentRef(String experiment, int imageIndex)
setImageExperimentRef
in interface loci.formats.meta.MetadataStore
public void setImageExperimenterRef(String experimenter, int imageIndex)
setImageExperimenterRef
in interface loci.formats.meta.MetadataStore
public void setImageGroupRef(String group, int imageIndex)
setImageGroupRef
in interface loci.formats.meta.MetadataStore
public void setImageInstrumentRef(String instrument, int imageIndex)
setImageInstrumentRef
in interface loci.formats.meta.MetadataStore
public void setImageMicrobeamManipulationRef(String microbeamManipulation, int imageIndex, int microbeamManipulationRefIndex)
setImageMicrobeamManipulationRef
in interface loci.formats.meta.MetadataStore
public void setImageName(String name, int imageIndex)
setImageName
in interface loci.formats.meta.MetadataStore
public void setImageROIRef(String roi, int imageIndex, int ROIRefIndex)
setImageROIRef
in interface loci.formats.meta.MetadataStore
public omero.model.ObjectiveSettings getImageObjectiveSettings(int imageIndex)
public void setImageObjectiveSettingsID(String id, int imageIndex)
setImageObjectiveSettingsID
in interface loci.formats.meta.MetadataStore
public void setImageObjectiveSettingsCorrectionCollar(Double correctionCollar, int imageIndex)
setImageObjectiveSettingsCorrectionCollar
in interface loci.formats.meta.MetadataStore
public void setImageObjectiveSettingsMedium(ome.xml.model.enums.Medium medium, int imageIndex)
setImageObjectiveSettingsMedium
in interface loci.formats.meta.MetadataStore
public void setImageObjectiveSettingsRefractiveIndex(Double refractiveIndex, int imageIndex)
setImageObjectiveSettingsRefractiveIndex
in interface loci.formats.meta.MetadataStore
public omero.model.ImagingEnvironment getImagingEnvironment(int imageIndex)
public void setImagingEnvironmentAirPressure(Double airPressure, int imageIndex)
setImagingEnvironmentAirPressure
in interface loci.formats.meta.MetadataStore
public void setImagingEnvironmentCO2Percent(ome.xml.model.primitives.PercentFraction co2percent, int imageIndex)
setImagingEnvironmentCO2Percent
in interface loci.formats.meta.MetadataStore
public void setImagingEnvironmentHumidity(ome.xml.model.primitives.PercentFraction humidity, int imageIndex)
setImagingEnvironmentHumidity
in interface loci.formats.meta.MetadataStore
public void setImagingEnvironmentTemperature(Double temperature, int imageIndex)
setImagingEnvironmentTemperature
in interface loci.formats.meta.MetadataStore
public void setInstrumentID(String id, int instrumentIndex)
setInstrumentID
in interface loci.formats.meta.MetadataStore
public omero.model.Laser getLaser(int instrumentIndex, int lightSourceIndex)
public void setLaserID(String id, int instrumentIndex, int lightSourceIndex)
setLaserID
in interface loci.formats.meta.MetadataStore
public void setLaserFrequencyMultiplication(ome.xml.model.primitives.PositiveInteger frequencyMultiplication, int instrumentIndex, int lightSourceIndex)
setLaserFrequencyMultiplication
in interface loci.formats.meta.MetadataStore
public void setLaserLaserMedium(ome.xml.model.enums.LaserMedium laserMedium, int instrumentIndex, int lightSourceIndex)
setLaserLaserMedium
in interface loci.formats.meta.MetadataStore
public void setLaserLotNumber(String lotNumber, int instrumentIndex, int lightSourceIndex)
setLaserLotNumber
in interface loci.formats.meta.MetadataStore
public void setLaserManufacturer(String manufacturer, int instrumentIndex, int lightSourceIndex)
setLaserManufacturer
in interface loci.formats.meta.MetadataStore
public void setLaserModel(String model, int instrumentIndex, int lightSourceIndex)
setLaserModel
in interface loci.formats.meta.MetadataStore
public void setLaserPockelCell(Boolean pockelCell, int instrumentIndex, int lightSourceIndex)
setLaserPockelCell
in interface loci.formats.meta.MetadataStore
public void setLaserPower(Double power, int instrumentIndex, int lightSourceIndex)
setLaserPower
in interface loci.formats.meta.MetadataStore
public void setLaserPulse(ome.xml.model.enums.Pulse pulse, int instrumentIndex, int lightSourceIndex)
setLaserPulse
in interface loci.formats.meta.MetadataStore
public void setLaserPump(String pump, int instrumentIndex, int lightSourceIndex)
setLaserPump
in interface loci.formats.meta.MetadataStore
public void setLaserRepetitionRate(Double repetitionRate, int instrumentIndex, int lightSourceIndex)
setLaserRepetitionRate
in interface loci.formats.meta.MetadataStore
public void setLaserSerialNumber(String serialNumber, int instrumentIndex, int lightSourceIndex)
setLaserSerialNumber
in interface loci.formats.meta.MetadataStore
public void setLaserTuneable(Boolean tuneable, int instrumentIndex, int lightSourceIndex)
setLaserTuneable
in interface loci.formats.meta.MetadataStore
public void setLaserType(ome.xml.model.enums.LaserType type, int instrumentIndex, int lightSourceIndex)
setLaserType
in interface loci.formats.meta.MetadataStore
public void setLaserWavelength(ome.xml.model.primitives.PositiveInteger wavelength, int instrumentIndex, int lightSourceIndex)
setLaserWavelength
in interface loci.formats.meta.MetadataStore
public omero.model.LightEmittingDiode getLightEmittingDiode(int instrumentIndex, int lightSourceIndex)
public void setLightEmittingDiodeID(String id, int instrumentIndex, int lightSourceIndex)
setLightEmittingDiodeID
in interface loci.formats.meta.MetadataStore
public void setLightEmittingDiodeLotNumber(String lotNumber, int instrumentIndex, int lightSourceIndex)
setLightEmittingDiodeLotNumber
in interface loci.formats.meta.MetadataStore
public void setLightEmittingDiodeManufacturer(String manufacturer, int instrumentIndex, int lightSourceIndex)
setLightEmittingDiodeManufacturer
in interface loci.formats.meta.MetadataStore
public void setLightEmittingDiodeModel(String model, int instrumentIndex, int lightSourceIndex)
setLightEmittingDiodeModel
in interface loci.formats.meta.MetadataStore
public void setLightEmittingDiodePower(Double power, int instrumentIndex, int lightSourceIndex)
setLightEmittingDiodePower
in interface loci.formats.meta.MetadataStore
public void setLightEmittingDiodeSerialNumber(String serialNumber, int instrumentIndex, int lightSourceIndex)
setLightEmittingDiodeSerialNumber
in interface loci.formats.meta.MetadataStore
public void setLightPathDichroicRef(String dichroic, int imageIndex, int channelIndex)
setLightPathDichroicRef
in interface loci.formats.meta.MetadataStore
public void setLightPathEmissionFilterRef(String emissionFilter, int imageIndex, int channelIndex, int emissionFilterRefIndex)
setLightPathEmissionFilterRef
in interface loci.formats.meta.MetadataStore
public void setLightPathExcitationFilterRef(String excitationFilter, int imageIndex, int channelIndex, int excitationFilterRefIndex)
setLightPathExcitationFilterRef
in interface loci.formats.meta.MetadataStore
public omero.model.Line getLine(int ROIIndex, int shapeIndex)
public void setLineID(String id, int ROIIndex, int shapeIndex)
setLineID
in interface loci.formats.meta.MetadataStore
public void setLineDescription(String description, int ROIIndex, int shapeIndex)
setLineDescription
in interface loci.formats.meta.MetadataStore
public void setLineFill(Integer fill, int ROIIndex, int shapeIndex)
setLineFill
in interface loci.formats.meta.MetadataStore
public void setLineFontSize(ome.xml.model.primitives.NonNegativeInteger fontSize, int ROIIndex, int shapeIndex)
setLineFontSize
in interface loci.formats.meta.MetadataStore
public void setLineLabel(String label, int ROIIndex, int shapeIndex)
setLineLabel
in interface loci.formats.meta.MetadataStore
public void setLineName(String name, int ROIIndex, int shapeIndex)
setLineName
in interface loci.formats.meta.MetadataStore
public void setLineStroke(Integer stroke, int ROIIndex, int shapeIndex)
setLineStroke
in interface loci.formats.meta.MetadataStore
public void setLineStrokeDashArray(String strokeDashArray, int ROIIndex, int shapeIndex)
setLineStrokeDashArray
in interface loci.formats.meta.MetadataStore
public void setLineStrokeWidth(Double strokeWidth, int ROIIndex, int shapeIndex)
setLineStrokeWidth
in interface loci.formats.meta.MetadataStore
public void setLineTheC(ome.xml.model.primitives.NonNegativeInteger theC, int ROIIndex, int shapeIndex)
setLineTheC
in interface loci.formats.meta.MetadataStore
public void setLineTheT(ome.xml.model.primitives.NonNegativeInteger theT, int ROIIndex, int shapeIndex)
setLineTheT
in interface loci.formats.meta.MetadataStore
public void setLineTheZ(ome.xml.model.primitives.NonNegativeInteger theZ, int ROIIndex, int shapeIndex)
setLineTheZ
in interface loci.formats.meta.MetadataStore
public void setLineTransform(String transform, int ROIIndex, int shapeIndex)
setLineTransform
in interface loci.formats.meta.MetadataStore
public void setLineX1(Double x1, int ROIIndex, int shapeIndex)
setLineX1
in interface loci.formats.meta.MetadataStore
public void setLineX2(Double x2, int ROIIndex, int shapeIndex)
setLineX2
in interface loci.formats.meta.MetadataStore
public void setLineY1(Double y1, int ROIIndex, int shapeIndex)
setLineY1
in interface loci.formats.meta.MetadataStore
public void setLineY2(Double y2, int ROIIndex, int shapeIndex)
setLineY2
in interface loci.formats.meta.MetadataStore
public omero.model.ListAnnotation getListAnnotation(int listAnnotationIndex)
public void setListAnnotationID(String id, int listAnnotationIndex)
setListAnnotationID
in interface loci.formats.meta.MetadataStore
public void setListAnnotationAnnotationRef(String annotation, int listAnnotationIndex, int annotationRefIndex)
setListAnnotationAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setListAnnotationNamespace(String namespace, int listAnnotationIndex)
setListAnnotationNamespace
in interface loci.formats.meta.MetadataStore
public omero.model.LongAnnotation getLongAnnotation(int longAnnotationIndex)
public void setLongAnnotationID(String id, int longAnnotationIndex)
setLongAnnotationID
in interface loci.formats.meta.MetadataStore
public void setLongAnnotationNamespace(String namespace, int longAnnotationIndex)
setLongAnnotationNamespace
in interface loci.formats.meta.MetadataStore
public void setLongAnnotationValue(Long value, int longAnnotationIndex)
setLongAnnotationValue
in interface loci.formats.meta.MetadataStore
public omero.model.Mask getMask(int ROIIndex, int shapeIndex)
public void setMaskBinData(byte[] binData, int roiIndex, int shapeIndex)
setMaskBinData
in interface loci.formats.meta.MetadataStore
public void setMaskDescription(String description, int ROIIndex, int shapeIndex)
setMaskDescription
in interface loci.formats.meta.MetadataStore
public void setMaskFill(Integer fill, int ROIIndex, int shapeIndex)
setMaskFill
in interface loci.formats.meta.MetadataStore
public void setMaskFontSize(ome.xml.model.primitives.NonNegativeInteger fontSize, int ROIIndex, int shapeIndex)
setMaskFontSize
in interface loci.formats.meta.MetadataStore
public void setMaskID(String id, int ROIIndex, int shapeIndex)
setMaskID
in interface loci.formats.meta.MetadataStore
public void setMaskLabel(String label, int ROIIndex, int shapeIndex)
setMaskLabel
in interface loci.formats.meta.MetadataStore
public void setMaskName(String name, int ROIIndex, int shapeIndex)
setMaskName
in interface loci.formats.meta.MetadataStore
public void setMaskStroke(Integer stroke, int ROIIndex, int shapeIndex)
setMaskStroke
in interface loci.formats.meta.MetadataStore
public void setMaskStrokeDashArray(String strokeDashArray, int ROIIndex, int shapeIndex)
setMaskStrokeDashArray
in interface loci.formats.meta.MetadataStore
public void setMaskStrokeWidth(Double strokeWidth, int ROIIndex, int shapeIndex)
setMaskStrokeWidth
in interface loci.formats.meta.MetadataStore
public void setMaskTheC(ome.xml.model.primitives.NonNegativeInteger theC, int ROIIndex, int shapeIndex)
setMaskTheC
in interface loci.formats.meta.MetadataStore
public void setMaskTheT(ome.xml.model.primitives.NonNegativeInteger theT, int ROIIndex, int shapeIndex)
setMaskTheT
in interface loci.formats.meta.MetadataStore
public void setMaskTheZ(ome.xml.model.primitives.NonNegativeInteger theZ, int ROIIndex, int shapeIndex)
setMaskTheZ
in interface loci.formats.meta.MetadataStore
public void setMaskTransform(String transform, int ROIIndex, int shapeIndex)
setMaskTransform
in interface loci.formats.meta.MetadataStore
public void setMaskX(Double x, int ROIIndex, int shapeIndex)
setMaskX
in interface loci.formats.meta.MetadataStore
public void setMaskY(Double y, int ROIIndex, int shapeIndex)
setMaskY
in interface loci.formats.meta.MetadataStore
public void setMaskHeight(Double height, int ROIIndex, int shapeIndex)
setMaskHeight
in interface loci.formats.meta.MetadataStore
public void setMaskWidth(Double width, int ROIIndex, int shapeIndex)
setMaskWidth
in interface loci.formats.meta.MetadataStore
public omero.model.MicrobeamManipulation getMicrobeamManipulation(int experimentIndex, int microbeamManipulationIndex)
public void setMicrobeamManipulationID(String id, int experimentIndex, int microbeamManipulationIndex)
setMicrobeamManipulationID
in interface loci.formats.meta.MetadataStore
public void setMicrobeamManipulationDescription(String description, int experimentIndex, int microbeamManipulationIndex)
setMicrobeamManipulationDescription
in interface loci.formats.meta.MetadataStore
public void setMicrobeamManipulationExperimenterRef(String experimenter, int experimentIndex, int microbeamManipulationIndex)
setMicrobeamManipulationExperimenterRef
in interface loci.formats.meta.MetadataStore
public void setMicrobeamManipulationROIRef(String roi, int experimentIndex, int microbeamManipulationIndex, int ROIRefIndex)
setMicrobeamManipulationROIRef
in interface loci.formats.meta.MetadataStore
public void setMicrobeamManipulationType(ome.xml.model.enums.MicrobeamManipulationType type, int experimentIndex, int microbeamManipulationIndex)
setMicrobeamManipulationType
in interface loci.formats.meta.MetadataStore
public omero.model.LightSettings getMicrobeamManipulationLightSourceSettings(int experimentIndex, int microbeamManipulationIndex, int lightSourceSettingsIndex)
public void setMicrobeamManipulationLightSourceSettingsID(String id, int experimentIndex, int microbeamManipulationIndex, int lightSourceSettingsIndex)
setMicrobeamManipulationLightSourceSettingsID
in interface loci.formats.meta.MetadataStore
public void setMicrobeamManipulationLightSourceSettingsAttenuation(ome.xml.model.primitives.PercentFraction attenuation, int experimentIndex, int microbeamManipulationIndex, int lightSourceSettingsIndex)
setMicrobeamManipulationLightSourceSettingsAttenuation
in interface loci.formats.meta.MetadataStore
public void setMicrobeamManipulationLightSourceSettingsWavelength(ome.xml.model.primitives.PositiveInteger wavelength, int experimentIndex, int microbeamManipulationIndex, int lightSourceSettingsIndex)
setMicrobeamManipulationLightSourceSettingsWavelength
in interface loci.formats.meta.MetadataStore
public void setMicroscopeLotNumber(String lotNumber, int instrumentIndex)
setMicroscopeLotNumber
in interface loci.formats.meta.MetadataStore
public void setMicroscopeManufacturer(String manufacturer, int instrumentIndex)
setMicroscopeManufacturer
in interface loci.formats.meta.MetadataStore
public void setMicroscopeModel(String model, int instrumentIndex)
setMicroscopeModel
in interface loci.formats.meta.MetadataStore
public void setMicroscopeSerialNumber(String serialNumber, int instrumentIndex)
setMicroscopeSerialNumber
in interface loci.formats.meta.MetadataStore
public void setMicroscopeType(ome.xml.model.enums.MicroscopeType type, int instrumentIndex)
setMicroscopeType
in interface loci.formats.meta.MetadataStore
public omero.model.OTF getOTF(int instrumentIndex, int OTFIndex)
public void setOTFID(String id, int instrumentIndex, int OTFIndex)
setOTFID
in interface loci.formats.meta.MetadataStore
public void setOTFBinaryFileFileName(String fileName, int instrumentIndex, int OTFIndex)
setOTFBinaryFileFileName
in interface loci.formats.meta.MetadataStore
public void setOTFBinaryFileMIMEType(String mimetype, int instrumentIndex, int OTFIndex)
setOTFBinaryFileMIMEType
in interface loci.formats.meta.MetadataStore
public void setOTFBinaryFileSize(ome.xml.model.primitives.NonNegativeLong size, int instrumentIndex, int OTFIndex)
setOTFBinaryFileSize
in interface loci.formats.meta.MetadataStore
public void setOTFFilterSetRef(String filterSet, int instrumentIndex, int OTFIndex)
setOTFFilterSetRef
in interface loci.formats.meta.MetadataStore
public void setOTFOpticalAxisAveraged(Boolean opticalAxisAveraged, int instrumentIndex, int OTFIndex)
setOTFOpticalAxisAveraged
in interface loci.formats.meta.MetadataStore
public void setOTFSizeX(ome.xml.model.primitives.PositiveInteger sizeX, int instrumentIndex, int OTFIndex)
setOTFSizeX
in interface loci.formats.meta.MetadataStore
public void setOTFSizeY(ome.xml.model.primitives.PositiveInteger sizeY, int instrumentIndex, int OTFIndex)
setOTFSizeY
in interface loci.formats.meta.MetadataStore
public void setOTFType(ome.xml.model.enums.PixelType type, int instrumentIndex, int OTFIndex)
setOTFType
in interface loci.formats.meta.MetadataStore
public void setOTFObjectiveSettingsID(String id, int instrumentIndex, int OTFIndex)
setOTFObjectiveSettingsID
in interface loci.formats.meta.MetadataStore
public void setOTFObjectiveSettingsCorrectionCollar(Double correctionCollar, int instrumentIndex, int OTFIndex)
setOTFObjectiveSettingsCorrectionCollar
in interface loci.formats.meta.MetadataStore
public void setOTFObjectiveSettingsMedium(ome.xml.model.enums.Medium medium, int instrumentIndex, int OTFIndex)
setOTFObjectiveSettingsMedium
in interface loci.formats.meta.MetadataStore
public void setOTFObjectiveSettingsRefractiveIndex(Double refractiveIndex, int instrumentIndex, int OTFIndex)
setOTFObjectiveSettingsRefractiveIndex
in interface loci.formats.meta.MetadataStore
public omero.model.Objective getObjective(int instrumentIndex, int objectiveIndex)
public void setObjectiveCalibratedMagnification(Double calibratedMagnification, int instrumentIndex, int objectiveIndex)
setObjectiveCalibratedMagnification
in interface loci.formats.meta.MetadataStore
public void setObjectiveCorrection(ome.xml.model.enums.Correction correction, int instrumentIndex, int objectiveIndex)
setObjectiveCorrection
in interface loci.formats.meta.MetadataStore
public void setObjectiveID(String id, int instrumentIndex, int objectiveIndex)
setObjectiveID
in interface loci.formats.meta.MetadataStore
public void setObjectiveImmersion(ome.xml.model.enums.Immersion immersion, int instrumentIndex, int objectiveIndex)
setObjectiveImmersion
in interface loci.formats.meta.MetadataStore
public void setObjectiveIris(Boolean iris, int instrumentIndex, int objectiveIndex)
setObjectiveIris
in interface loci.formats.meta.MetadataStore
public void setObjectiveLensNA(Double lensNA, int instrumentIndex, int objectiveIndex)
setObjectiveLensNA
in interface loci.formats.meta.MetadataStore
public void setObjectiveLotNumber(String lotNumber, int instrumentIndex, int objectiveIndex)
setObjectiveLotNumber
in interface loci.formats.meta.MetadataStore
public void setObjectiveManufacturer(String manufacturer, int instrumentIndex, int objectiveIndex)
setObjectiveManufacturer
in interface loci.formats.meta.MetadataStore
public void setObjectiveModel(String model, int instrumentIndex, int objectiveIndex)
setObjectiveModel
in interface loci.formats.meta.MetadataStore
public void setObjectiveNominalMagnification(ome.xml.model.primitives.PositiveInteger nominalMagnification, int instrumentIndex, int objectiveIndex)
setObjectiveNominalMagnification
in interface loci.formats.meta.MetadataStore
public void setObjectiveSerialNumber(String serialNumber, int instrumentIndex, int objectiveIndex)
setObjectiveSerialNumber
in interface loci.formats.meta.MetadataStore
public void setObjectiveWorkingDistance(Double workingDistance, int instrumentIndex, int objectiveIndex)
setObjectiveWorkingDistance
in interface loci.formats.meta.MetadataStore
public void setPathDefinition(String definition, int ROIIndex, int shapeIndex)
setPathDefinition
in interface loci.formats.meta.MetadataStore
public void setPathDescription(String description, int ROIIndex, int shapeIndex)
setPathDescription
in interface loci.formats.meta.MetadataStore
public void setPathFill(Integer fill, int ROIIndex, int shapeIndex)
setPathFill
in interface loci.formats.meta.MetadataStore
public void setPathFontSize(ome.xml.model.primitives.NonNegativeInteger fontSize, int ROIIndex, int shapeIndex)
setPathFontSize
in interface loci.formats.meta.MetadataStore
public void setPathID(String id, int ROIIndex, int shapeIndex)
setPathID
in interface loci.formats.meta.MetadataStore
public void setPathLabel(String label, int ROIIndex, int shapeIndex)
setPathLabel
in interface loci.formats.meta.MetadataStore
public void setPathName(String name, int ROIIndex, int shapeIndex)
setPathName
in interface loci.formats.meta.MetadataStore
public void setPathStroke(Integer stroke, int ROIIndex, int shapeIndex)
setPathStroke
in interface loci.formats.meta.MetadataStore
public void setPathStrokeDashArray(String strokeDashArray, int ROIIndex, int shapeIndex)
setPathStrokeDashArray
in interface loci.formats.meta.MetadataStore
public void setPathStrokeWidth(Double strokeWidth, int ROIIndex, int shapeIndex)
setPathStrokeWidth
in interface loci.formats.meta.MetadataStore
public void setPathTheC(ome.xml.model.primitives.NonNegativeInteger theC, int ROIIndex, int shapeIndex)
setPathTheC
in interface loci.formats.meta.MetadataStore
public void setPathTheT(ome.xml.model.primitives.NonNegativeInteger theT, int ROIIndex, int shapeIndex)
setPathTheT
in interface loci.formats.meta.MetadataStore
public void setPathTheZ(ome.xml.model.primitives.NonNegativeInteger theZ, int ROIIndex, int shapeIndex)
setPathTheZ
in interface loci.formats.meta.MetadataStore
public void setPathTransform(String transform, int ROIIndex, int shapeIndex)
setPathTransform
in interface loci.formats.meta.MetadataStore
public void setPixelsID(String id, int imageIndex)
setPixelsID
in interface loci.formats.meta.MetadataStore
public void setPixelsAnnotationRef(String annotation, int imageIndex, int annotationRefIndex)
setPixelsAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setPixelsBinDataBigEndian(Boolean bigEndian, int imageIndex, int binDataIndex)
setPixelsBinDataBigEndian
in interface loci.formats.meta.MetadataStore
public void setPixelsDimensionOrder(ome.xml.model.enums.DimensionOrder dimensionOrder, int imageIndex)
setPixelsDimensionOrder
in interface loci.formats.meta.MetadataStore
public void setPixelsPhysicalSizeX(ome.xml.model.primitives.PositiveFloat physicalSizeX, int imageIndex)
setPixelsPhysicalSizeX
in interface loci.formats.meta.MetadataStore
public void setPixelsPhysicalSizeY(ome.xml.model.primitives.PositiveFloat physicalSizeY, int imageIndex)
setPixelsPhysicalSizeY
in interface loci.formats.meta.MetadataStore
public void setPixelsPhysicalSizeZ(ome.xml.model.primitives.PositiveFloat physicalSizeZ, int imageIndex)
setPixelsPhysicalSizeZ
in interface loci.formats.meta.MetadataStore
public void setPixelsSizeC(ome.xml.model.primitives.PositiveInteger sizeC, int imageIndex)
setPixelsSizeC
in interface loci.formats.meta.MetadataStore
public void setPixelsSizeT(ome.xml.model.primitives.PositiveInteger sizeT, int imageIndex)
setPixelsSizeT
in interface loci.formats.meta.MetadataStore
public void setPixelsSizeX(ome.xml.model.primitives.PositiveInteger sizeX, int imageIndex)
setPixelsSizeX
in interface loci.formats.meta.MetadataStore
public void setPixelsSizeY(ome.xml.model.primitives.PositiveInteger sizeY, int imageIndex)
setPixelsSizeY
in interface loci.formats.meta.MetadataStore
public void setPixelsSizeZ(ome.xml.model.primitives.PositiveInteger sizeZ, int imageIndex)
setPixelsSizeZ
in interface loci.formats.meta.MetadataStore
public void setPixelsTimeIncrement(Double timeIncrement, int imageIndex)
setPixelsTimeIncrement
in interface loci.formats.meta.MetadataStore
public void setPixelsType(ome.xml.model.enums.PixelType type, int imageIndex)
setPixelsType
in interface loci.formats.meta.MetadataStore
public void setPlaneAnnotationRef(String annotation, int imageIndex, int planeIndex, int annotationRefIndex)
setPlaneAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setPlaneDeltaT(Double deltaT, int imageIndex, int planeIndex)
setPlaneDeltaT
in interface loci.formats.meta.MetadataStore
public void setPlaneExposureTime(Double exposureTime, int imageIndex, int planeIndex)
setPlaneExposureTime
in interface loci.formats.meta.MetadataStore
public void setPlaneHashSHA1(String hashSHA1, int imageIndex, int planeIndex)
setPlaneHashSHA1
in interface loci.formats.meta.MetadataStore
public void setPlanePositionX(Double positionX, int imageIndex, int planeIndex)
setPlanePositionX
in interface loci.formats.meta.MetadataStore
public void setPlanePositionY(Double positionY, int imageIndex, int planeIndex)
setPlanePositionY
in interface loci.formats.meta.MetadataStore
public void setPlanePositionZ(Double positionZ, int imageIndex, int planeIndex)
setPlanePositionZ
in interface loci.formats.meta.MetadataStore
public void setPlaneTheC(ome.xml.model.primitives.NonNegativeInteger theC, int imageIndex, int planeIndex)
setPlaneTheC
in interface loci.formats.meta.MetadataStore
public void setPlaneTheT(ome.xml.model.primitives.NonNegativeInteger theT, int imageIndex, int planeIndex)
setPlaneTheT
in interface loci.formats.meta.MetadataStore
public void setPlaneTheZ(ome.xml.model.primitives.NonNegativeInteger theZ, int imageIndex, int planeIndex)
setPlaneTheZ
in interface loci.formats.meta.MetadataStore
public void setPlateAcquisitionAnnotationRef(String annotation, int plateIndex, int plateAcquisitionIndex, int annotationRefIndex)
setPlateAcquisitionAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setPlateAcquisitionDescription(String description, int plateIndex, int plateAcquisitionIndex)
setPlateAcquisitionDescription
in interface loci.formats.meta.MetadataStore
public void setPlateAcquisitionEndTime(String endTime, int plateIndex, int plateAcquisitionIndex)
setPlateAcquisitionEndTime
in interface loci.formats.meta.MetadataStore
public void setPlateAcquisitionID(String id, int plateIndex, int plateAcquisitionIndex)
setPlateAcquisitionID
in interface loci.formats.meta.MetadataStore
public void setPlateAcquisitionMaximumFieldCount(ome.xml.model.primitives.PositiveInteger maximumFieldCount, int plateIndex, int plateAcquisitionIndex)
setPlateAcquisitionMaximumFieldCount
in interface loci.formats.meta.MetadataStore
public void setPlateAcquisitionName(String name, int plateIndex, int plateAcquisitionIndex)
setPlateAcquisitionName
in interface loci.formats.meta.MetadataStore
public void setPlateAcquisitionStartTime(String startTime, int plateIndex, int plateAcquisitionIndex)
setPlateAcquisitionStartTime
in interface loci.formats.meta.MetadataStore
public void setPlateAcquisitionWellSampleRef(String wellSample, int plateIndex, int plateAcquisitionIndex, int wellSampleRefIndex)
setPlateAcquisitionWellSampleRef
in interface loci.formats.meta.MetadataStore
public void setPlateAnnotationRef(String annotation, int plateIndex, int annotationRefIndex)
setPlateAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setPlateColumnNamingConvention(ome.xml.model.enums.NamingConvention columnNamingConvention, int plateIndex)
setPlateColumnNamingConvention
in interface loci.formats.meta.MetadataStore
public void setPlateColumns(ome.xml.model.primitives.PositiveInteger columns, int plateIndex)
setPlateColumns
in interface loci.formats.meta.MetadataStore
public void setPlateDescription(String description, int plateIndex)
setPlateDescription
in interface loci.formats.meta.MetadataStore
public void setPlateExternalIdentifier(String externalIdentifier, int plateIndex)
setPlateExternalIdentifier
in interface loci.formats.meta.MetadataStore
public void setPlateID(String id, int plateIndex)
setPlateID
in interface loci.formats.meta.MetadataStore
public void setPlateName(String name, int plateIndex)
setPlateName
in interface loci.formats.meta.MetadataStore
public void setPlateRowNamingConvention(ome.xml.model.enums.NamingConvention rowNamingConvention, int plateIndex)
setPlateRowNamingConvention
in interface loci.formats.meta.MetadataStore
public void setPlateRows(ome.xml.model.primitives.PositiveInteger rows, int plateIndex)
setPlateRows
in interface loci.formats.meta.MetadataStore
public void setPlateScreenRef(String screen, int plateIndex, int screenRefIndex)
setPlateScreenRef
in interface loci.formats.meta.MetadataStore
public void setPlateStatus(String status, int plateIndex)
setPlateStatus
in interface loci.formats.meta.MetadataStore
public void setPlateWellOriginX(Double wellOriginX, int plateIndex)
setPlateWellOriginX
in interface loci.formats.meta.MetadataStore
public void setPlateWellOriginY(Double wellOriginY, int plateIndex)
setPlateWellOriginY
in interface loci.formats.meta.MetadataStore
public void setPointDescription(String description, int ROIIndex, int shapeIndex)
setPointDescription
in interface loci.formats.meta.MetadataStore
public void setPointFill(Integer fill, int ROIIndex, int shapeIndex)
setPointFill
in interface loci.formats.meta.MetadataStore
public void setPointFontSize(ome.xml.model.primitives.NonNegativeInteger fontSize, int ROIIndex, int shapeIndex)
setPointFontSize
in interface loci.formats.meta.MetadataStore
public void setPointID(String id, int ROIIndex, int shapeIndex)
setPointID
in interface loci.formats.meta.MetadataStore
public void setPointLabel(String label, int ROIIndex, int shapeIndex)
setPointLabel
in interface loci.formats.meta.MetadataStore
public void setPointName(String name, int ROIIndex, int shapeIndex)
setPointName
in interface loci.formats.meta.MetadataStore
public void setPointStroke(Integer stroke, int ROIIndex, int shapeIndex)
setPointStroke
in interface loci.formats.meta.MetadataStore
public void setPointStrokeDashArray(String strokeDashArray, int ROIIndex, int shapeIndex)
setPointStrokeDashArray
in interface loci.formats.meta.MetadataStore
public void setPointStrokeWidth(Double strokeWidth, int ROIIndex, int shapeIndex)
setPointStrokeWidth
in interface loci.formats.meta.MetadataStore
public void setPointTheC(ome.xml.model.primitives.NonNegativeInteger theC, int ROIIndex, int shapeIndex)
setPointTheC
in interface loci.formats.meta.MetadataStore
public void setPointTheT(ome.xml.model.primitives.NonNegativeInteger theT, int ROIIndex, int shapeIndex)
setPointTheT
in interface loci.formats.meta.MetadataStore
public void setPointTheZ(ome.xml.model.primitives.NonNegativeInteger theZ, int ROIIndex, int shapeIndex)
setPointTheZ
in interface loci.formats.meta.MetadataStore
public void setPointTransform(String transform, int ROIIndex, int shapeIndex)
setPointTransform
in interface loci.formats.meta.MetadataStore
public void setPointX(Double x, int ROIIndex, int shapeIndex)
setPointX
in interface loci.formats.meta.MetadataStore
public void setPointY(Double y, int ROIIndex, int shapeIndex)
setPointY
in interface loci.formats.meta.MetadataStore
public void setPolylineID(String id, int ROIIndex, int shapeIndex)
setPolylineID
in interface loci.formats.meta.MetadataStore
public void setPolylineClosed(Boolean closed, int ROIIndex, int shapeIndex)
setPolylineClosed
in interface loci.formats.meta.MetadataStore
public void setPolylineDescription(String description, int ROIIndex, int shapeIndex)
setPolylineDescription
in interface loci.formats.meta.MetadataStore
public void setPolylineFill(Integer fill, int ROIIndex, int shapeIndex)
setPolylineFill
in interface loci.formats.meta.MetadataStore
public void setPolylineFontSize(ome.xml.model.primitives.NonNegativeInteger fontSize, int ROIIndex, int shapeIndex)
setPolylineFontSize
in interface loci.formats.meta.MetadataStore
public void setPolylineLabel(String label, int ROIIndex, int shapeIndex)
setPolylineLabel
in interface loci.formats.meta.MetadataStore
public void setPolylineName(String name, int ROIIndex, int shapeIndex)
setPolylineName
in interface loci.formats.meta.MetadataStore
public void setPolylinePoints(String points, int ROIIndex, int shapeIndex)
setPolylinePoints
in interface loci.formats.meta.MetadataStore
public void setPolylineStroke(Integer stroke, int ROIIndex, int shapeIndex)
setPolylineStroke
in interface loci.formats.meta.MetadataStore
public void setPolylineStrokeDashArray(String strokeDashArray, int ROIIndex, int shapeIndex)
setPolylineStrokeDashArray
in interface loci.formats.meta.MetadataStore
public void setPolylineStrokeWidth(Double strokeWidth, int ROIIndex, int shapeIndex)
setPolylineStrokeWidth
in interface loci.formats.meta.MetadataStore
public void setPolylineTheC(ome.xml.model.primitives.NonNegativeInteger theC, int ROIIndex, int shapeIndex)
setPolylineTheC
in interface loci.formats.meta.MetadataStore
public void setPolylineTheT(ome.xml.model.primitives.NonNegativeInteger theT, int ROIIndex, int shapeIndex)
setPolylineTheT
in interface loci.formats.meta.MetadataStore
public void setPolylineTheZ(ome.xml.model.primitives.NonNegativeInteger theZ, int ROIIndex, int shapeIndex)
setPolylineTheZ
in interface loci.formats.meta.MetadataStore
public void setPolylineTransform(String transform, int ROIIndex, int shapeIndex)
setPolylineTransform
in interface loci.formats.meta.MetadataStore
public void setProjectID(String id, int projectIndex)
setProjectID
in interface loci.formats.meta.MetadataStore
public void setProjectAnnotationRef(String annotation, int projectIndex, int annotationRefIndex)
setProjectAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setProjectDescription(String description, int projectIndex)
setProjectDescription
in interface loci.formats.meta.MetadataStore
public void setProjectExperimenterRef(String experimenter, int projectIndex)
setProjectExperimenterRef
in interface loci.formats.meta.MetadataStore
public void setProjectGroupRef(String group, int projectIndex)
setProjectGroupRef
in interface loci.formats.meta.MetadataStore
public void setProjectName(String name, int projectIndex)
setProjectName
in interface loci.formats.meta.MetadataStore
public void setROIID(String id, int ROIIndex)
setROIID
in interface loci.formats.meta.MetadataStore
public void setROIAnnotationRef(String annotation, int ROIIndex, int annotationRefIndex)
setROIAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setROIDescription(String description, int ROIIndex)
setROIDescription
in interface loci.formats.meta.MetadataStore
public void setROIName(String name, int ROIIndex)
setROIName
in interface loci.formats.meta.MetadataStore
public void setROINamespace(String namespace, int ROIIndex)
setROINamespace
in interface loci.formats.meta.MetadataStore
public void setReagentID(String id, int screenIndex, int reagentIndex)
setReagentID
in interface loci.formats.meta.MetadataStore
public void setReagentAnnotationRef(String annotation, int screenIndex, int reagentIndex, int annotationRefIndex)
setReagentAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setReagentDescription(String description, int screenIndex, int reagentIndex)
setReagentDescription
in interface loci.formats.meta.MetadataStore
public void setReagentName(String name, int screenIndex, int reagentIndex)
setReagentName
in interface loci.formats.meta.MetadataStore
public void setReagentReagentIdentifier(String reagentIdentifier, int screenIndex, int reagentIndex)
setReagentReagentIdentifier
in interface loci.formats.meta.MetadataStore
public void setRectangleID(String id, int ROIIndex, int shapeIndex)
setRectangleID
in interface loci.formats.meta.MetadataStore
public void setRectangleDescription(String description, int ROIIndex, int shapeIndex)
setRectangleDescription
in interface loci.formats.meta.MetadataStore
public void setRectangleFill(Integer fill, int ROIIndex, int shapeIndex)
setRectangleFill
in interface loci.formats.meta.MetadataStore
public void setRectangleFontSize(ome.xml.model.primitives.NonNegativeInteger fontSize, int ROIIndex, int shapeIndex)
setRectangleFontSize
in interface loci.formats.meta.MetadataStore
public void setRectangleHeight(Double height, int ROIIndex, int shapeIndex)
setRectangleHeight
in interface loci.formats.meta.MetadataStore
public void setRectangleLabel(String label, int ROIIndex, int shapeIndex)
setRectangleLabel
in interface loci.formats.meta.MetadataStore
public void setRectangleName(String name, int ROIIndex, int shapeIndex)
setRectangleName
in interface loci.formats.meta.MetadataStore
public void setRectangleStroke(Integer stroke, int ROIIndex, int shapeIndex)
setRectangleStroke
in interface loci.formats.meta.MetadataStore
public void setRectangleStrokeDashArray(String strokeDashArray, int ROIIndex, int shapeIndex)
setRectangleStrokeDashArray
in interface loci.formats.meta.MetadataStore
public void setRectangleStrokeWidth(Double strokeWidth, int ROIIndex, int shapeIndex)
setRectangleStrokeWidth
in interface loci.formats.meta.MetadataStore
public void setRectangleTheC(ome.xml.model.primitives.NonNegativeInteger theC, int ROIIndex, int shapeIndex)
setRectangleTheC
in interface loci.formats.meta.MetadataStore
public void setRectangleTheT(ome.xml.model.primitives.NonNegativeInteger theT, int ROIIndex, int shapeIndex)
setRectangleTheT
in interface loci.formats.meta.MetadataStore
public void setRectangleTheZ(ome.xml.model.primitives.NonNegativeInteger theZ, int ROIIndex, int shapeIndex)
setRectangleTheZ
in interface loci.formats.meta.MetadataStore
public void setRectangleTransform(String transform, int ROIIndex, int shapeIndex)
setRectangleTransform
in interface loci.formats.meta.MetadataStore
public void setRectangleWidth(Double width, int ROIIndex, int shapeIndex)
setRectangleWidth
in interface loci.formats.meta.MetadataStore
public void setRectangleX(Double x, int ROIIndex, int shapeIndex)
setRectangleX
in interface loci.formats.meta.MetadataStore
public void setRectangleY(Double y, int ROIIndex, int shapeIndex)
setRectangleY
in interface loci.formats.meta.MetadataStore
public void setRoot(Object root)
setRoot
in interface loci.formats.meta.MetadataStore
public void setScreenID(String id, int screenIndex)
setScreenID
in interface loci.formats.meta.MetadataStore
public void setScreenAnnotationRef(String annotation, int screenIndex, int annotationRefIndex)
setScreenAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setScreenDescription(String description, int screenIndex)
setScreenDescription
in interface loci.formats.meta.MetadataStore
public void setScreenName(String name, int screenIndex)
setScreenName
in interface loci.formats.meta.MetadataStore
public void setScreenPlateRef(String plate, int screenIndex, int plateRefIndex)
setScreenPlateRef
in interface loci.formats.meta.MetadataStore
public void setScreenProtocolDescription(String protocolDescription, int screenIndex)
setScreenProtocolDescription
in interface loci.formats.meta.MetadataStore
public void setScreenProtocolIdentifier(String protocolIdentifier, int screenIndex)
setScreenProtocolIdentifier
in interface loci.formats.meta.MetadataStore
public void setScreenReagentSetDescription(String reagentSetDescription, int screenIndex)
setScreenReagentSetDescription
in interface loci.formats.meta.MetadataStore
public void setScreenReagentSetIdentifier(String reagentSetIdentifier, int screenIndex)
setScreenReagentSetIdentifier
in interface loci.formats.meta.MetadataStore
public void setScreenType(String type, int screenIndex)
setScreenType
in interface loci.formats.meta.MetadataStore
public void setStageLabelName(String name, int imageIndex)
setStageLabelName
in interface loci.formats.meta.MetadataStore
public void setStageLabelX(Double x, int imageIndex)
setStageLabelX
in interface loci.formats.meta.MetadataStore
public void setStageLabelY(Double y, int imageIndex)
setStageLabelY
in interface loci.formats.meta.MetadataStore
public void setStageLabelZ(Double z, int imageIndex)
setStageLabelZ
in interface loci.formats.meta.MetadataStore
public void setCommentAnnotationID(String id, int commentAnnotationIndex)
setCommentAnnotationID
in interface loci.formats.meta.MetadataStore
public void setCommentAnnotationNamespace(String namespace, int commentAnnotationIndex)
setCommentAnnotationNamespace
in interface loci.formats.meta.MetadataStore
public void setCommentAnnotationValue(String value, int commentAnnotationIndex)
setCommentAnnotationValue
in interface loci.formats.meta.MetadataStore
public void setTextID(String id, int ROIIndex, int shapeIndex)
setTextID
in interface loci.formats.meta.MetadataStore
public void setTextDescription(String description, int ROIIndex, int shapeIndex)
setTextDescription
in interface loci.formats.meta.MetadataStore
public void setTextFill(Integer fill, int ROIIndex, int shapeIndex)
setTextFill
in interface loci.formats.meta.MetadataStore
public void setTextFontSize(ome.xml.model.primitives.NonNegativeInteger fontSize, int ROIIndex, int shapeIndex)
setTextFontSize
in interface loci.formats.meta.MetadataStore
public void setTextLabel(String label, int ROIIndex, int shapeIndex)
setTextLabel
in interface loci.formats.meta.MetadataStore
public void setTextName(String name, int ROIIndex, int shapeIndex)
setTextName
in interface loci.formats.meta.MetadataStore
public void setTextStroke(Integer stroke, int ROIIndex, int shapeIndex)
setTextStroke
in interface loci.formats.meta.MetadataStore
public void setTextStrokeDashArray(String strokeDashArray, int ROIIndex, int shapeIndex)
setTextStrokeDashArray
in interface loci.formats.meta.MetadataStore
public void setTextStrokeWidth(Double strokeWidth, int ROIIndex, int shapeIndex)
setTextStrokeWidth
in interface loci.formats.meta.MetadataStore
public void setTextTheC(ome.xml.model.primitives.NonNegativeInteger theC, int ROIIndex, int shapeIndex)
setTextTheC
in interface loci.formats.meta.MetadataStore
public void setTextTheT(ome.xml.model.primitives.NonNegativeInteger theT, int ROIIndex, int shapeIndex)
setTextTheT
in interface loci.formats.meta.MetadataStore
public void setTextTheZ(ome.xml.model.primitives.NonNegativeInteger theZ, int ROIIndex, int shapeIndex)
setTextTheZ
in interface loci.formats.meta.MetadataStore
public void setTextTransform(String transform, int ROIIndex, int shapeIndex)
setTextTransform
in interface loci.formats.meta.MetadataStore
public void setTextValue(String value, int ROIIndex, int shapeIndex)
setTextValue
in interface loci.formats.meta.MetadataStore
public void setTextX(Double x, int ROIIndex, int shapeIndex)
setTextX
in interface loci.formats.meta.MetadataStore
public void setTextY(Double y, int ROIIndex, int shapeIndex)
setTextY
in interface loci.formats.meta.MetadataStore
public void setTiffDataFirstC(ome.xml.model.primitives.NonNegativeInteger firstC, int imageIndex, int tiffDataIndex)
setTiffDataFirstC
in interface loci.formats.meta.MetadataStore
public void setTiffDataFirstT(ome.xml.model.primitives.NonNegativeInteger firstT, int imageIndex, int tiffDataIndex)
setTiffDataFirstT
in interface loci.formats.meta.MetadataStore
public void setTiffDataFirstZ(ome.xml.model.primitives.NonNegativeInteger firstZ, int imageIndex, int tiffDataIndex)
setTiffDataFirstZ
in interface loci.formats.meta.MetadataStore
public void setTiffDataIFD(ome.xml.model.primitives.NonNegativeInteger ifd, int imageIndex, int tiffDataIndex)
setTiffDataIFD
in interface loci.formats.meta.MetadataStore
public void setTiffDataPlaneCount(ome.xml.model.primitives.NonNegativeInteger planeCount, int imageIndex, int tiffDataIndex)
setTiffDataPlaneCount
in interface loci.formats.meta.MetadataStore
public void setTimestampAnnotationID(String id, int timestampAnnotationIndex)
setTimestampAnnotationID
in interface loci.formats.meta.MetadataStore
public void setTimestampAnnotationNamespace(String namespace, int timestampAnnotationIndex)
setTimestampAnnotationNamespace
in interface loci.formats.meta.MetadataStore
public void setTimestampAnnotationValue(String value, int timestampAnnotationIndex)
setTimestampAnnotationValue
in interface loci.formats.meta.MetadataStore
public void setTransmittanceRangeCutIn(ome.xml.model.primitives.PositiveInteger cutIn, int instrumentIndex, int filterIndex)
setTransmittanceRangeCutIn
in interface loci.formats.meta.MetadataStore
public void setTransmittanceRangeCutInTolerance(ome.xml.model.primitives.NonNegativeInteger cutInTolerance, int instrumentIndex, int filterIndex)
setTransmittanceRangeCutInTolerance
in interface loci.formats.meta.MetadataStore
public void setTransmittanceRangeCutOut(ome.xml.model.primitives.PositiveInteger cutOut, int instrumentIndex, int filterIndex)
setTransmittanceRangeCutOut
in interface loci.formats.meta.MetadataStore
public void setTransmittanceRangeCutOutTolerance(ome.xml.model.primitives.NonNegativeInteger cutOutTolerance, int instrumentIndex, int filterIndex)
setTransmittanceRangeCutOutTolerance
in interface loci.formats.meta.MetadataStore
public void setTransmittanceRangeTransmittance(ome.xml.model.primitives.PercentFraction transmittance, int instrumentIndex, int filterIndex)
setTransmittanceRangeTransmittance
in interface loci.formats.meta.MetadataStore
public void setUUID(String uuid)
setUUID
in interface loci.formats.meta.MetadataStore
public void setUUIDFileName(String fileName, int imageIndex, int tiffDataIndex)
setUUIDFileName
in interface loci.formats.meta.MetadataStore
public void setUUIDValue(String fileName, int imageIndex, int tiffDataIndex)
setUUIDValue
in interface loci.formats.meta.MetadataStore
public void setWellID(String id, int plateIndex, int wellIndex)
setWellID
in interface loci.formats.meta.MetadataStore
public void setWellAnnotationRef(String annotation, int plateIndex, int wellIndex, int annotationRefIndex)
setWellAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setWellColor(Integer color, int plateIndex, int wellIndex)
setWellColor
in interface loci.formats.meta.MetadataStore
public void setWellColumn(ome.xml.model.primitives.NonNegativeInteger column, int plateIndex, int wellIndex)
setWellColumn
in interface loci.formats.meta.MetadataStore
public void setWellExternalDescription(String externalDescription, int plateIndex, int wellIndex)
setWellExternalDescription
in interface loci.formats.meta.MetadataStore
public void setWellExternalIdentifier(String externalIdentifier, int plateIndex, int wellIndex)
setWellExternalIdentifier
in interface loci.formats.meta.MetadataStore
public void setWellReagentRef(String reagent, int plateIndex, int wellIndex)
setWellReagentRef
in interface loci.formats.meta.MetadataStore
public void setWellRow(ome.xml.model.primitives.NonNegativeInteger row, int plateIndex, int wellIndex)
setWellRow
in interface loci.formats.meta.MetadataStore
public void setWellStatus(String status, int plateIndex, int wellIndex)
setWellStatus
in interface loci.formats.meta.MetadataStore
public void setWellSampleID(String id, int plateIndex, int wellIndex, int wellSampleIndex)
setWellSampleID
in interface loci.formats.meta.MetadataStore
public void setWellSampleAnnotationRef(String annotation, int plateIndex, int wellIndex, int wellSampleIndex, int annotationRefIndex)
setWellSampleAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setWellSampleImageRef(String image, int plateIndex, int wellIndex, int wellSampleIndex)
setWellSampleImageRef
in interface loci.formats.meta.MetadataStore
public void setWellSampleIndex(ome.xml.model.primitives.NonNegativeInteger index, int plateIndex, int wellIndex, int wellSampleIndex)
setWellSampleIndex
in interface loci.formats.meta.MetadataStore
public void setWellSamplePositionX(Double positionX, int plateIndex, int wellIndex, int wellSampleIndex)
setWellSamplePositionX
in interface loci.formats.meta.MetadataStore
public void setWellSamplePositionY(Double positionY, int plateIndex, int wellIndex, int wellSampleIndex)
setWellSamplePositionY
in interface loci.formats.meta.MetadataStore
public void setWellSampleTimepoint(String timepoint, int plateIndex, int wellIndex, int wellSampleIndex)
setWellSampleTimepoint
in interface loci.formats.meta.MetadataStore
public void setXMLAnnotationID(String id, int XMLAnnotationIndex)
setXMLAnnotationID
in interface loci.formats.meta.MetadataStore
public void setXMLAnnotationNamespace(String namespace, int XMLAnnotationIndex)
setXMLAnnotationNamespace
in interface loci.formats.meta.MetadataStore
public void setXMLAnnotationValue(String value, int XMLAnnotationIndex)
setXMLAnnotationValue
in interface loci.formats.meta.MetadataStore
public void setBooleanAnnotationAnnotationRef(String annotation, int booleanAnnotationIndex, int annotationRefIndex)
setBooleanAnnotationAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setBooleanAnnotationDescription(String description, int booleanAnnotationIndex)
setBooleanAnnotationDescription
in interface loci.formats.meta.MetadataStore
public void setCommentAnnotationAnnotationRef(String annotation, int commentAnnotationIndex, int annotationRefIndex)
setCommentAnnotationAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setCommentAnnotationDescription(String description, int commentAnnotationIndex)
setCommentAnnotationDescription
in interface loci.formats.meta.MetadataStore
public void setDoubleAnnotationAnnotationRef(String annotation, int doubleAnnotationIndex, int annotationRefIndex)
setDoubleAnnotationAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setDoubleAnnotationDescription(String description, int doubleAnnotationIndex)
setDoubleAnnotationDescription
in interface loci.formats.meta.MetadataStore
public void setFileAnnotationAnnotationRef(String annotation, int fileAnnotationIndex, int annotationRefIndex)
setFileAnnotationAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setFileAnnotationDescription(String description, int fileAnnotationIndex)
setFileAnnotationDescription
in interface loci.formats.meta.MetadataStore
public void setListAnnotationDescription(String description, int listAnnotationIndex)
setListAnnotationDescription
in interface loci.formats.meta.MetadataStore
public void setLongAnnotationAnnotationRef(String annotation, int longAnnotationIndex, int annotationRefIndex)
setLongAnnotationAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setLongAnnotationDescription(String description, int longAnnotationIndex)
setLongAnnotationDescription
in interface loci.formats.meta.MetadataStore
public void setTagAnnotationAnnotationRef(String annotation, int tagAnnotationIndex, int annotationRefIndex)
setTagAnnotationAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setTagAnnotationDescription(String description, int tagAnnotationIndex)
setTagAnnotationDescription
in interface loci.formats.meta.MetadataStore
public void setTagAnnotationID(String id, int tagAnnotationIndex)
setTagAnnotationID
in interface loci.formats.meta.MetadataStore
public void setTagAnnotationNamespace(String namespace, int tagAnnotationIndex)
setTagAnnotationNamespace
in interface loci.formats.meta.MetadataStore
public void setTagAnnotationValue(String value, int tagAnnotationIndex)
setTagAnnotationValue
in interface loci.formats.meta.MetadataStore
public void setTermAnnotationAnnotationRef(String annotation, int termAnnotationIndex, int annotationRefIndex)
setTermAnnotationAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setTermAnnotationDescription(String description, int termAnnotationIndex)
setTermAnnotationDescription
in interface loci.formats.meta.MetadataStore
public void setTermAnnotationID(String id, int termAnnotationIndex)
setTermAnnotationID
in interface loci.formats.meta.MetadataStore
public void setTermAnnotationNamespace(String namespace, int termAnnotationIndex)
setTermAnnotationNamespace
in interface loci.formats.meta.MetadataStore
public void setTermAnnotationValue(String value, int termAnnotationIndex)
setTermAnnotationValue
in interface loci.formats.meta.MetadataStore
public void setTimestampAnnotationAnnotationRef(String annotation, int timestampAnnotationIndex, int annotationRefIndex)
setTimestampAnnotationAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setTimestampAnnotationDescription(String description, int timestampAnnotationIndex)
setTimestampAnnotationDescription
in interface loci.formats.meta.MetadataStore
public void setXMLAnnotationAnnotationRef(String annotation, int XMLAnnotationIndex, int annotationRefIndex)
setXMLAnnotationAnnotationRef
in interface loci.formats.meta.MetadataStore
public void setXMLAnnotationDescription(String description, int XMLAnnotationIndex)
setXMLAnnotationDescription
in interface loci.formats.meta.MetadataStore
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