- GENE - Static variable in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.MaterialTypeIdentifier
-
Material identifier for a gene.
- Geometry - Class in ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto
-
Immutable class defining the width and height of something.
- GEOMETRY_1536_32X48 - Static variable in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.Geometry
-
- GEOMETRY_384_16X24 - Static variable in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.Geometry
-
- GEOMETRY_96_8X12 - Static variable in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.Geometry
-
- getAugmentedCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ExperimentIdentifier
-
Returns the augmented (full) code of this experiment.
- getAugmentedCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.MaterialIdentifier
-
- getAugmentedCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.PlateIdentifier
-
Returns the augmented (full) code of this plate.
- getCartesianDimensions() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.Geometry
-
Returns the cartesian coordinates as an int[]
.
- getChannel() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.MicroscopyImageReference
-
channel code
- getChannel() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.PlateImageReference
-
channel code
- getChannelCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageRepresentationFormat.ImageRepresentationTransformation
-
- getChannelCodes() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageDatasetMetadata
-
Returns channel codes.
- getChannelLabels() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageDatasetMetadata
-
- getChannelNames() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageDatasetMetadata
-
- getChannels() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ExperimentImageMetadata
-
Return all channels of images contained in the experiment.
- getChannels() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageDatasetMetadata
-
Returns the list of channels for this dataset.
- getCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.FeatureInformation
-
Returns the code of the feature.
- getCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageChannel
-
Returns the channel code.
- getCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageTransformationInfo
-
The code of the image transformation.
- getCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.WellMetadata
-
- getColorDepth() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageRepresentationFormat
-
- getContainerDataSetCode(String) - Static method in class OpenBISScreeningML
-
- getDataSet(String) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
- getDataSet(String) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- getDataset() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.DatasetImageRepresentationFormats
-
The data set the formats relate to.
- getDataset() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.FeatureVectorDataset
-
identifier of the dataset containing feature vectors
- getDataSetCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.DataSetCodeAndWellPositions
-
Returns the data set code.
- getDatasetCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.DatasetIdentifier
-
The code of this dataset.
- getDatasetCode() - Method in interface ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.IDatasetIdentifier
-
a code of the dataset
- getDataSetCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageRepresentationFormat
-
Returns the data set code to which this image representation format belongs.
- getDatasetIdentifiers(List<String>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Converts a given list of dataset codes to dataset identifiers which can be used in other API
calls.
- getDatasetIdentifiers(List<String>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
Converts a given list of dataset codes to dataset identifiers which can be used in other API calls.
- getDataSetMetaData(List<String>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Returns meta data for all specified data set codes.
- getDataSetMetaData(List<String>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- getDataSetMetaData(String[]) - Static method in class OpenBISScreeningML
-
Lists meta data of specified data sets.
- getDataSets(WellIdentifier, String) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
- getDataSets(WellIdentifier, IDataSetFilter) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Gets proxies to the data sets owned by specified well and passing specified filter..
- getDataSets(PlateIdentifier, String) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
- getDataSets(PlateIdentifier, IDataSetFilter) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Gets proxies to the data sets owned by specified plate and passing specified filter.
- getDataSets(ExperimentIdentifier, IDataSetFilter) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Gets proxies to the data sets owned by specified experiment and passing specified filter.
- getDataSets(WellIdentifier, String) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
Get proxies to the data sets owned by specified well.
- getDataSets(WellIdentifier, IDataSetFilter) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- getDataSets(PlateIdentifier, String) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
Get proxies to the data sets owned by specified plate.
- getDataSets(PlateIdentifier, IDataSetFilter) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- getDataSets(ExperimentIdentifier, IDataSetFilter) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- getDataSetType() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.DatasetReference
-
Returns data set type.
- getDatasetWellReference() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.FeatureVectorWithDescription
-
Identifier of the dataset and well of this feature vector.
- getDatastoreServerUrl() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.DatasetIdentifier
-
- getDatastoreServerUrl() - Method in interface ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.IDatasetIdentifier
-
a code which points to the datastore server on which the dataset is accessible
- getDescription() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.FeatureInformation
-
Returns the text description of the feature.
- getDesiredImageSize() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.LoadImageConfiguration
-
The desired size of the image.
- getDimX() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.Geometry
-
Returns the dimension on the x-axis.
- getDimY() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.Geometry
-
Returns the dimension on the y-axis.
- getExperimentCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ExperimentIdentifier
-
- getExperimentCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.Plate
-
The code of the experiment to which the plate belongs.
- getExperimentIdentifier() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.DatasetReference
-
Returns the identifier of the experiment that this dataset belongs to.
- getExperimentIdentifier() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.Plate
-
Get the identifier of the experiment that this plate is assigned to.
- getExperimentImageMetadata(ExperimentIdentifier) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Returns aggregated metadata for all images/plates within one experiment.
- getExperimentImageMetadata(ExperimentIdentifier) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- getExperimentPlateIdentifier() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.PlateWellReferenceWithDatasets
-
Returns the experiment / plate identifier of this reference.
- getFeatureCodes() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.FeatureVectorDataset
-
Returns the feature codes.
- getFeatureCodes() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.FeatureVectorWithDescription
-
- getFeatureCodes() - Method in interface ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.IFeatureCodesProvider
-
Returns the feature codes.
- getFeatureLabels() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.FeatureVectorDataset
-
Returns the feature labels.
- getFeatureList(IFeatureVectorDatasetIdentifier, String) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Return the feature codes from the specified feature list of a specified feature data set
- getFeatureList(IFeatureVectorDatasetIdentifier, String) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- getFeatureMatrix(String, String, String, String[]) - Static method in class OpenBISScreeningML
-
Returns the feature matrix of the specified features for all locations in
experiment (a location is one well position in one feature vector data set) in
experiment connected to gene in [0]
, location annotations
in [1]
and feature annotation in [2]
.
- getFeatureMatrix(String, String, String[]) - Static method in class OpenBISScreeningML
-
Returns the feature matrix of the specified features for all locations (a location is one
well position in one feature vector data set) in experiment connected to
gene in [0]
, location annotations in [1]
and feature
annotation in [2]
.
- getFeatureMatrixForPlate(String, String, String[]) - Static method in class OpenBISScreeningML
-
Returns the feature matrix of the specified features for all locations (a location is one
well position in one feature vector data set) of all feature vector data sets created by
specified analysis procedure of the given plate in [0]
, location
annotations in [1]
and feature annotation in [2]
.
- getFeatureNames() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.FeatureVectorDataset
-
Deprecated.
- getFeatureNames() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.FeatureVectorWithDescription
-
Names (and implicitly order) of the features present in each feature vector.
- getFeatureVectorDatasetReferences() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.PlateWellReferenceWithDatasets
-
Returns the feature vector data sets of the plate of this reference.
- getFeatureVectors() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.FeatureVectorDataset
-
all feature vectors for a dataset
- getFileType() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageRepresentationFormat
-
- getFullDataSets(PlateIdentifier, IDataSetFilter) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
A list of data sets owned by specified plate and passing specified filter.
- getFullDataSets(ExperimentIdentifier, IDataSetFilter) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
A list of data sets owned by specified experiment and passing specified filter.
- getFullDataSets(PlateIdentifier, IDataSetFilter) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- getFullDataSets(ExperimentIdentifier, IDataSetFilter) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- getGeneMappingForPlates(String[]) - Static method in class OpenBISScreeningML
-
Returns the gene mapping for the given plateCodes in [0]
and location
annotations in [1]
.
- getHeight() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.Geometry
-
Returns the height.
- getHeight() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageDatasetMetadata
-
Height of the images in this dataset.
- getHeight() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageRepresentationFormat
-
- getHeight() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageSize
-
- getId() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageRepresentationFormat
-
Return the ID of this image representation format.
- getIdentifier() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ExperimentImageMetadata
-
Return the experiment identifier.
- getImageDataset() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageDatasetMetadata
-
Identifier of this image dataset.
- getImageDatasetReferences() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.PlateWellReferenceWithDatasets
-
Returns the image data set of the plate of this reference.
- getImageRepresentationFormats() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.DatasetImageRepresentationFormats
-
- getImagesMetadata(String) - Static method in class OpenBISScreeningML
-
Fetches metadata of the image datasets for the specified plate.
- getImageTransformerFactoryOrNull(List<IDatasetIdentifier>, String) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Returns the transformer factory for the specified channel and the experiment to which the
specified data sets belong.
- getImageTransformerFactoryOrNull(List<IDatasetIdentifier>, String) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- getLabel() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.FeatureInformation
-
Returns the label of the feature (pretty-print, but not guaranteed to be unique).
- getLabel() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageChannel
-
Returns the channel label.
- getLabel() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageTransformationInfo
-
The (pretty-printed) label of the image transformation.
- getMatching(List<ImageRepresentationFormat>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.AbstractFormatSelectionCriterion
-
- getMatching(List<ImageRepresentationFormat>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.IImageRepresentationFormatSelectionCriterion
-
- getMatching(List<ImageRepresentationFormat>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.SizeCriterion
-
- getMaterialCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.MaterialIdentifier
-
- getMaterialProperties() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.Material
-
- getMaterialProperties() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.WellMetadata
-
- getMaterialsForWell(int, int) - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.PlateWellMaterialMapping
-
Returns the list of materials present in well (row,col).
- getMaterialTypeCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.MaterialTypeIdentifier
-
Returns the code of this material type.
- getMaterialTypeIdentifier() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.MaterialIdentifier
-
- getNumberOfChannels() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageDatasetMetadata
-
Number of channels (wavelengths) in which images have been acquired for this dataset.
- getNumberOfColumns() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.Geometry
-
Returns the number of columns.
- getNumberOfRows() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.Geometry
-
Returns the number of rows.
- getNumberOfTiles() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageDatasetMetadata
-
Number of image tiles (or "fields") available for each well.
- getOriginalImageSize() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ExperimentImageMetadata
-
Returns the image size if all images in the experiment have the same size.
- getOutputStream(PlateImageReference) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade.IImageOutputStreamProvider
-
- getParentImageDataset() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.FeatureVectorDatasetReference
-
Parent image dataset which has been analyzed to obtain the feature vectors, or
null
, if the data set has no parent image dataset.
- getParentImageDatasetReference() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageDatasetReference
-
Returns the image parent dataset of this data set, or null
, if this data set
doesn't have a parent image dataset or the server version is too old (< 1.6) to fill it.
- getPermId() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.DatasetIdentifier
-
- getPermId() - Method in interface ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.IPermanentIdentifier
-
Returns the permanent identifier.
- getPermId() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.PermanentIdentifier
-
- getPlate() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.DatasetReference
-
Returns the identifier of the plate that this dataset belongs to.
- getPlateCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.PlateIdentifier
-
A code of the plate.
- getPlateGeometry() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.DatasetReference
-
Returns the plate geometry.
- getPlateGeometry() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ExperimentImageMetadata
-
Returns the plate geometry if all plates in the experiment have the same geometry.
- getPlateGeometry() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.PlateMetadata
-
- getPlateGeometry() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.PlateWellMaterialMapping
-
Returns the plate geometry of the plate that this mapping is for.
- getPlateIdentifier() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.PlateWellMaterialMapping
-
Returns the plate identifier that this plate is for.
- getPlateIdentifier() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.WellIdentifier
-
- getPlateMetadataList(List<? extends PlateIdentifier>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Return full metadata for each specified plate, including wells and their properties.
- getPlateMetadataList(List<? extends PlateIdentifier>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- getPlateMetadataList(String[]) - Static method in class OpenBISScreeningML
-
Experimental method that returns an array of
PlateMetadata
Java objects for a given
list of plate codes.
- getPlateProperties(PlateIdentifier) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Returns all properties of specified plate as a map.
- getPlateProperties(PlateIdentifier) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- getPlateProperties(String) - Static method in class OpenBISScreeningML
-
Returns the properties of specified plate.
- getProjectCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ExperimentIdentifier
-
The code of the project of this experiment.
- getProjectCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.Plate
-
The code of the project to which the plate belongs.
- getProperties() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.DatasetReference
-
Returns the data set properties.
- getProperties() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.Material
-
- getProperties() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.PlateMetadata
-
- getProperties() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.WellMetadata
-
- getRegistrationDate() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.DatasetReference
-
Returns the registration date.
- getSessionToken() - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Return the session token for this authenticated user.
- getSessionToken() - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
Return the session token for this authenticated user.
- getSingleChannelImageTransformationCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.LoadImageConfiguration
-
Code of the transformation, which should be applied to the image.
- getSpaceCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ExperimentIdentifier
-
The code of the space of this experiment.
- getThumbnailHeight() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageDatasetMetadata
-
The height of the thumbnail images, or 0 if no thumbnails are available for this data set.
- getThumbnailImageSizes() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ExperimentImageMetadata
-
Returns a sorted list of image sizes where for all experiment's images thumbnail images of
these sizes exist.
- getThumbnailWidth() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageDatasetMetadata
-
The width of the thumbnail images, or 0 if no thumbnails are available for this data set.
- getTile() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.MicroscopyImageReference
-
a sequential number of an image tile, starts from 0
- getTile() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.PlateImageReference
-
a sequential number of an image tile, starts from 0
- getTileGeometry() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ExperimentImageMetadata
-
Returns the tiles geometry if all tiles in the experiment have the same geometry.
- getTilesCols() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageDatasetMetadata
-
Number of columns of image tiles (or "fields") available for each well.
- getTilesRows() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageDatasetMetadata
-
Number of rows of image tiles (or "fields") available for each well.
- getTransformationCode() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageRepresentationFormat.ImageRepresentationTransformation
-
- getTransformationId() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageRepresentationFormat.ImageRepresentationTransformation
-
- getTransformations() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageChannel
-
Returns the transformations defined for this channel.
- getTransformations() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageRepresentationFormat
-
- getType() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.WellMetadata
-
- getValueObjects() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.FeatureVector
-
Returns the feature vector as a list of objects.
- getValues() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.FeatureVector
-
Returns the array of numerical features.
- getVocabularyFeatureFlags() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.FeatureVector
-
Return the array of flags specifying the type of feature where true
means
vocabulary-based feature and false
numerical feature.
- getVocabularyTerms() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.FeatureVector
-
Returns the array of vocabulary-based features.
- getWell(int, int) - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.PlateMetadata
-
- getWellColumn() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.WellPosition
-
well column, starts from 1
- getWellPosition() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.FeatureVector
-
Returns the well position on a plate.
- getWellPosition() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.FeatureVectorDatasetWellReference
-
Returns the well position of this reference.
- getWellPosition() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.PlateImageReference
-
Well position on the plate
- getWellPosition() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.PlateWellReferenceWithDatasets
-
Returns the well position of this reference.
- getWellPosition() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.WellIdentifier
-
- getWellPositions() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.DataSetCodeAndWellPositions
-
Returns the well positions.
- getWellProperties(WellIdentifier) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Returns all properties of specified well as a map.
- getWellProperties(WellIdentifier) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- getWellProperties(String, int, int) - Static method in class OpenBISScreeningML
-
Returns the properties of specified well for specified plate.
- getWellRow() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.WellPosition
-
well row, starts from 1
- getWells() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.PlateMetadata
-
- getWidth() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.Geometry
-
Returns the width.
- getWidth() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageDatasetMetadata
-
Width of the images in this dataset.
- getWidth() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageRepresentationFormat
-
- getWidth() - Method in class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.ImageSize
-
- listAnalysisProcedures(ExperimentIdentifier) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Returns an alphabetically sorted list of analysis procedure codes of all data sets of the
specified experiment.
- listAnalysisProcedures(ExperimentIdentifier) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- listAnalysisProcedures(String) - Static method in class OpenBISScreeningML
-
Returns an alphabetically sorted list of analysis procedure codes of all data sets of a
specified experiment.
- listAvailableFeatureCodes(List<? extends IFeatureVectorDatasetIdentifier>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For a given set of feature vector data sets provides the list of all available features.
- listAvailableFeatureCodes(List<? extends IFeatureVectorDatasetIdentifier>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
For a given set of feature vector data sets provides the list of all available features.
- listAvailableFeatureLists(IFeatureVectorDatasetIdentifier) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For a given feature vector data set return a list of available feature lists.
- listAvailableFeatureLists(IFeatureVectorDatasetIdentifier) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- listAvailableFeatureNames(List<? extends IFeatureVectorDatasetIdentifier>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
- listAvailableFeatureNames(List<? extends IFeatureVectorDatasetIdentifier>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- listAvailableFeatures(List<? extends IFeatureVectorDatasetIdentifier>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For a given set of feature vector data sets provide the list of all available features.
- listAvailableFeatures(List<? extends IFeatureVectorDatasetIdentifier>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
For a given set of feature vector data sets provide the list of all available features.
- listAvailableImageRepresentationFormats(List<? extends IDatasetIdentifier>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
- listAvailableImageRepresentationFormats(List<? extends IDatasetIdentifier>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- listChannels(String) - Static method in class OpenBISScreeningML
-
Lists all channels measured in experiment.
- listDataSetFilesForExperiment(String, String) - Static method in class OpenBISScreeningML
-
Lists all files of all data sets for specified experiment and data set type code matching
specified regular expression pattern.
- listDataSetsFiles(String, String) - Static method in class OpenBISScreeningML
-
Lists all files of all data sets for specifies plate and data set type code matching
specified regular expression pattern.
- listExperiments() - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Return the list of all visible experiments, along with their hierarchical context (space,
project).
- listExperiments(String) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Return the list of all experiments visible to user userId, along with their
hierarchical context (space, project).
- listExperiments() - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- listExperiments(String) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- listExperiments() - Static method in class OpenBISScreeningML
-
Lists all experiment.
- listFeatures(String, String) - Static method in class OpenBISScreeningML
-
Lists all features computed for experiment using specified analysis procedure.
- listFeatureVectorDatasets(List<? extends PlateIdentifier>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For a given set of plates provides the list of all connected data sets containing feature
vectors.
- listFeatureVectorDatasets(List<? extends PlateIdentifier>, String) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For a given set of plates provides the list of all connected data sets containing feature
vectors and having specified analysis procedure property.
- listFeatureVectorDatasets(List<? extends PlateIdentifier>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
For a given set of plates provides the list of all connected data sets containing feature vectors.
- listFeatureVectorDatasets(List<? extends PlateIdentifier>, String) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- listImageDatasets(List<? extends PlateIdentifier>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
- listImageDatasets(List<? extends PlateIdentifier>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- listImageMetadata(IImageDatasetIdentifier) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For a given image data set, provide meta like like which image channels have been acquired,
what is the tile geometry, the available (natural) image size(s) and the like.
- listImageMetadata(List<? extends IImageDatasetIdentifier>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For a given set of image data sets, provide meta like like which image channels have been
acquired, what is the tile geometry, the available (natural) image size(s) and the like.
- listImageMetadata(IImageDatasetIdentifier) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- listImageMetadata(List<? extends IImageDatasetIdentifier>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- listMaterials(String) - Static method in class OpenBISScreeningML
-
List all material of a given type.
- listPlateMaterialMapping(List<? extends PlateIdentifier>, MaterialTypeIdentifier) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For a given list of plates, return the mapping of plate wells to materials
contained in each well.
- listPlateMaterialMapping(List<? extends PlateIdentifier>, MaterialTypeIdentifier) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- listPlates() - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Return the list of all visible plates assigned to any experiment, along with their
hierarchical context (space, project, experiment).
- listPlates(ExperimentIdentifier) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Return the list of all plates for the given experiment.
- listPlates(ExperimentIdentifier, String) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Return the list of all plates for the given experiment and analysis procedure.
- listPlates() - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
Return the list of all visible plates assigned to any experiment, along with their hierarchical context (space, project, experiment).
- listPlates(ExperimentIdentifier) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
Return the list of all plates for the given experiment.
- listPlates(ExperimentIdentifier, String) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- listPlates() - Static method in class OpenBISScreeningML
-
Lists all plates.
- listPlates(String) - Static method in class OpenBISScreeningML
-
Lists the plates of experiment.
- listPlates(String, String) - Static method in class OpenBISScreeningML
-
Lists the plates of experiment and analysis procedure.
- listPlateWells(ExperimentIdentifier, MaterialIdentifier, boolean) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For the given experimentIdentifier find all plate locations that are connected to
the specified materialIdentifier.
- listPlateWells(MaterialIdentifier, boolean) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For the given materialIdentifier find all plate locations that are connected to
it.
- listPlateWells(PlateIdentifier) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For the given plateIdentifier find all wells that are connected to it.
- listPlateWells(ExperimentIdentifier, MaterialIdentifier, boolean) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
For the given experimentIdentifier find all plate locations that are connected to the specified materialIdentifier.
- listPlateWells(MaterialIdentifier, boolean) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
For the given materialIdentifier find all plate locations that are connected to it.
- listPlateWells(PlateIdentifier) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
For the given plateIdentifier find all wells that are connected to it.
- listRawImageDatasets(List<? extends PlateIdentifier>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For a given set of plates provides the list of all connected data sets containing raw images.
- listRawImageDatasets(List<? extends PlateIdentifier>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
For a given set of plates provides the list of all connected data sets containing raw images.
- listSegmentationImageDatasets(List<? extends PlateIdentifier>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For a given set of plates provides the list of all connected data sets containing
segmentation images (overlays).
- listSegmentationImageDatasets(List<? extends PlateIdentifier>, String) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For a given set of plates provides the list of all connected data sets containing
segmentation images (overlays) and calculated by specified analysis procedure.
- listSegmentationImageDatasets(List<? extends PlateIdentifier>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
For a given set of plates provides the list of all connected data sets containing images.
- listSegmentationImageDatasets(List<? extends PlateIdentifier>, String) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- listSegmentationObjects(String, String) - Static method in class OpenBISScreeningML
-
Lists all segmentation objects for the plate.
- loadDataSetFile(String, String, String) - Static method in class OpenBISScreeningML
-
Loads file/folder of specified data set and specified file/folder path inside the data set.
- loadDataSets(String, String, String) - Static method in class OpenBISScreeningML
-
Loads data sets for specified plate code.
- loadDataSets(String, String, Object[][], String) - Static method in class OpenBISScreeningML
-
Loads data sets for specified plate code.
- loadDataSetsForExperiment(String, String, Object[][], String) - Static method in class OpenBISScreeningML
-
Loads data sets for specified experiment code.
- LoadEmptyImagesTest - Class in ch.systemsx.cisd.openbis.plugin.screening.client.api.v1
-
A test class which tests the performance of loading thumbnails.
- loadFeatures(List<FeatureVectorDatasetReference>, List<String>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For a given set of data sets and a set of features (given by their code), provide all the
feature vectors.
- loadFeatures(List<FeatureVectorDatasetReference>, List<String>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
For a given set of data sets and a set of features (given by their code), provide all the feature vectors.
- loadFeaturesForDatasetWellReferences(List<FeatureVectorDatasetWellReference>, List<String>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Conceptually, for a given list of dataset well references (i.e.
- loadFeaturesForDatasetWellReferences(List<FeatureVectorDatasetWellReference>, List<String>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- loadFeaturesForPlates(List<? extends PlateIdentifier>, List<String>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For a given set of plates and a set of features (given by their code), provide all the
feature vectors.
- loadFeaturesForPlates(List<? extends PlateIdentifier>, List<String>, String) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For a given set of plates and a set of features (given by their code), provide all the
feature vectors created by specified analysis procedure.
- loadFeaturesForPlates(List<? extends PlateIdentifier>, List<String>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
For a given set of plates and a set of features (given by their code), provide all the feature vectors.
- loadFeaturesForPlates(List<? extends PlateIdentifier>, List<String>, String) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- loadFeaturesForPlateWells(ExperimentIdentifier, MaterialIdentifier, List<String>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
- loadFeaturesForPlateWells(ExperimentIdentifier, MaterialIdentifier, String, List<String>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For the given experimentIdentifier find all plate locations that are connected to
the specified materialIdentifier and load the feature vectors for the given
feature code if not null
, or all available features otherwise.
- loadFeaturesForPlateWells(MaterialIdentifier, List<String>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
- loadFeaturesForPlateWells(MaterialIdentifier, String, List<String>) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
For the given materialIdentifier find all plate locations that are connected to it
and load the feature vectors for the given feature code if not null
, or all
available features otherwise.
- loadFeaturesForPlateWells(ExperimentIdentifier, MaterialIdentifier, List<String>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- loadFeaturesForPlateWells(ExperimentIdentifier, MaterialIdentifier, String, List<String>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- loadFeaturesForPlateWells(MaterialIdentifier, List<String>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- loadFeaturesForPlateWells(MaterialIdentifier, String, List<String>) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- LoadImageConfiguration - Class in ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto
-
A DTO for transmitting information about how the images should be loaded.
- LoadImageConfiguration() - Constructor for class ch.systemsx.cisd.openbis.plugin.screening.shared.api.v1.dto.LoadImageConfiguration
-
- loadImages(List<PlateImageReference>, ScreeningOpenbisServiceFacade.IImageOutputStreamProvider) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Saves images for a given list of image references (given by data set code, well position,
channel and tile) in the provided output streams.
- loadImages(List<PlateImageReference>, ScreeningOpenbisServiceFacade.IImageOutputStreamProvider, boolean) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Saves images for a given list of image references (given by data set code, well position,
channel and tile) in the provided output streams.
- loadImages(List<PlateImageReference>, boolean, IPlateImageHandler) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Loads images for a given list of image references (given by data set code, well position,
channel and tile) and hands it over to the plateImageHandler.
If convertToPng==true
, the images will be converted to PNG format before being
shipped, otherwise they will be shipped in the format that they are stored on the server.
- loadImages(IDatasetIdentifier, List<WellPosition>, String, ImageSize) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Loads original images or thumbnails for a specified data set, a list of well positions (empty
list means all wells), a channel, and an optional thumb nail size.
- loadImages(IDatasetIdentifier, List<WellPosition>, String, ImageSize, IPlateImageHandler) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Loads PNG-encoded images for specified data set, list of well positions (empty list means all
wells), channel, and optional thumb nail size.
- loadImages(List<PlateImageReference>, ImageSize, IPlateImageHandler) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Loads PNG-encoded images for specified image references and, optionally, image size.
- loadImages(List<PlateImageReference>, LoadImageConfiguration, IPlateImageHandler) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Loads images where the desired properties of the images are specified by a
LoadImageConfiguration.
- loadImages(List<PlateImageReference>, IPlateImageHandler, ImageRepresentationFormat) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Provides images for the specified list of image references (specified by data set code, well
position, channel and tile) and specified image representation format.
- loadImages(List<PlateImageReference>, IPlateImageHandler, IImageRepresentationFormatSelectionCriterion...) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
-
Provides images for the specified list of image references (specified by data set code, well
position, channel and tile) and image selection criteria.
- loadImages(List<PlateImageReference>, ScreeningOpenbisServiceFacade.IImageOutputStreamProvider) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
Saves images for a given list of image references (given by data set code, well position, channel and tile) in the provided output streams.
- loadImages(List<PlateImageReference>, ScreeningOpenbisServiceFacade.IImageOutputStreamProvider, boolean) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
Saves images for a given list of image references (given by data set code, well position, channel and tile) in the provided output streams.
- loadImages(List<PlateImageReference>, boolean, IPlateImageHandler) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- loadImages(IDatasetIdentifier, List<WellPosition>, String, ImageSize) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- loadImages(IDatasetIdentifier, List<WellPosition>, String, ImageSize, IPlateImageHandler) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- loadImages(List<PlateImageReference>, ImageSize, IPlateImageHandler) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- loadImages(List<PlateImageReference>, LoadImageConfiguration, IPlateImageHandler) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- loadImages(List<PlateImageReference>, IPlateImageHandler, ImageRepresentationFormat) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- loadImages(List<PlateImageReference>, IPlateImageHandler, IImageRepresentationFormatSelectionCriterion...) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
-
- loadImages(String, int, int) - Static method in class OpenBISScreeningML
-
Loads the TIFF images for the given well location, all tiles and all channels and stores them
in temporary files.
- loadImages(String, int, int, int) - Static method in class OpenBISScreeningML
-
Loads the TIFF images for the given well location, tile number, and all channels and stores
them in temporary files.
- loadImages(String, int, int, String[]) - Static method in class OpenBISScreeningML
-
Loads the TIFF images for the given well location, list of channels, and all tiles and stores
them in temporary files.
- loadImages(String, int, int, int, String[]) - Static method in class OpenBISScreeningML
-
Loads the TIFF images for the given well location, tile number, and list of channels and
stores them in temporary files.
- LoadImagesScreeningClientApiTest - Class in ch.systemsx.cisd.openbis.plugin.screening.client.api.v1
-
A test class which shows how to use API to load images.
- LoadImagesScreeningClientApiTest() - Constructor for class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.LoadImagesScreeningClientApiTest
-
- LoadImagesWithTransformationTest - Class in ch.systemsx.cisd.openbis.plugin.screening.client.api.v1
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A test class which downloads image for one well in a data set with and without the
transformation.
- loadImageWellCaching(PlateImageReference, ImageSize) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
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Loads an PNG-encoded image for the specified image reference and, optionally, image size.
- loadImageWellCaching(PlateImageReference, ImageSize) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
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- loadPhysicalThumbnails(List<PlateImageReference>, ImageRepresentationFormat, IPlateImageHandler) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
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Retrieves images for the specified image references and invokes the plateImageHandler passing
in image data.
- loadPhysicalThumbnails(List<PlateImageReference>, ImageRepresentationFormat, ScreeningOpenbisServiceFacade.IImageOutputStreamProvider) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
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Retrieves images for the specified image references and invokes the
IImageOutputStreamProvider passing in image data.
- loadPhysicalThumbnails(List<PlateImageReference>, ImageRepresentationFormat, IPlateImageHandler) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
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- loadPhysicalThumbnails(List<PlateImageReference>, ImageRepresentationFormat, ScreeningOpenbisServiceFacade.IImageOutputStreamProvider) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
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- loadSegmentationImages(String, int, int, String[], String) - Static method in class OpenBISScreeningML
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- loadSegmentationImages(String, int, int, int, String[], String) - Static method in class OpenBISScreeningML
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- loadThumbnailImages(List<PlateImageReference>, IPlateImageHandler) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
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Loads thumbnail images for specified data set, for a given list of image references (given by
data set code, well position, channel and tile) in the provided output streams.
- loadThumbnailImages(List<PlateImageReference>, ScreeningOpenbisServiceFacade.IImageOutputStreamProvider) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
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Loads thumbnail images for specified data set, for a given list of image references (given by
data set code, well position, channel and tile) in the provided output streams.
- loadThumbnailImages(List<PlateImageReference>, IPlateImageHandler) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
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- loadThumbnailImages(List<PlateImageReference>, ScreeningOpenbisServiceFacade.IImageOutputStreamProvider) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
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- loadThumbnailImageWellCaching(PlateImageReference) - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
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Loads the PNG-encoded image for the specified imageReference.
- loadThumbnailImageWellCaching(PlateImageReference) - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
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- LoadThumbnailsPerformanceTest - Class in ch.systemsx.cisd.openbis.plugin.screening.client.api.v1
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A test class which tests the performance of loading thumbnails.
- login(String, String, String) - Static method in class OpenBISScreeningML
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Login to the openBIS server given as url.
- logout() - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.AnalysisProcedureTest
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- logout() - Method in interface ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.IScreeningOpenbisServiceFacade
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Closes connection with the server.
- logout() - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.LoadEmptyImagesTest
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- logout() - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.LoadImagesWithTransformationTest
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- logout() - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.LoadThumbnailsPerformanceTest
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- logout() - Method in class ch.systemsx.cisd.openbis.plugin.screening.client.api.v1.ScreeningOpenbisServiceFacade
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Closes connection with the server.
- logout() - Static method in class OpenBISScreeningML
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Logs out and closes the session on the server.