Package ome.xml.model
Class FileAnnotation
- java.lang.Object
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- ome.xml.model.AbstractOMEModelObject
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- ome.xml.model.Annotation
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- ome.xml.model.TypeAnnotation
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- ome.xml.model.FileAnnotation
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- All Implemented Interfaces:
OMEModelObject
public class FileAnnotation extends TypeAnnotation
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Constructor Summary
Constructors Constructor Description FileAnnotation()
Default constructor.FileAnnotation(FileAnnotation orig)
Copy constructor.FileAnnotation(Element element, OMEModel model)
Constructs FileAnnotation recursively from an XML DOM tree.
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description Element
asXMLElement(Document document)
Takes the entire object hierarchy and produces an XML DOM tree.Element
asXMLElement(Document document, Element FileAnnotation_element)
Takes the entire object hierarchy and produced an XML DOM tree taking into account class hierarchy.BinaryFile
getBinaryFile()
StructuredAnnotations
getStructuredAnnotations()
boolean
link(Reference reference, OMEModelObject o)
Link a given OME model object to this model object.void
setBinaryFile(BinaryFile binaryFile)
void
setStructuredAnnotations(StructuredAnnotations structuredAnnotations_BackReference)
void
update(Element element, OMEModel model)
Updates FileAnnotation recursively from an XML DOM tree.-
Methods inherited from class ome.xml.model.Annotation
copyLinkedAnnotationList, copyLinkedChannelList, copyLinkedDatasetList, copyLinkedDetectorList, copyLinkedDichroicList, copyLinkedExperimenterGroupList, copyLinkedExperimenterList, copyLinkedFilterList, copyLinkedFolderList, copyLinkedImageList, copyLinkedInstrumentList, copyLinkedLightPathList, copyLinkedLightSourceList, copyLinkedObjectiveList, copyLinkedPlaneList, copyLinkedPlateAcquisitionList, copyLinkedPlateList, copyLinkedProjectList, copyLinkedReagentList, copyLinkedROIList, copyLinkedScreenList, copyLinkedShapeList, copyLinkedWellList, getAnnotator, getDescription, getID, getLinkedAnnotation, getLinkedChannel, getLinkedDataset, getLinkedDetector, getLinkedDichroic, getLinkedExperimenter, getLinkedExperimenterGroup, getLinkedFilter, getLinkedFolder, getLinkedImage, getLinkedInstrument, getLinkedLightPath, getLinkedLightSource, getLinkedObjective, getLinkedPlane, getLinkedPlate, getLinkedPlateAcquisition, getLinkedProject, getLinkedReagent, getLinkedROI, getLinkedScreen, getLinkedShape, getLinkedWell, getNamespace, linkAnnotation, linkChannel, linkDataset, linkDetector, linkDichroic, linkExperimenter, linkExperimenterGroup, linkFilter, linkFolder, linkImage, linkInstrument, linkLightPath, linkLightSource, linkObjective, linkPlane, linkPlate, linkPlateAcquisition, linkProject, linkReagent, linkROI, linkScreen, linkShape, linkWell, setAnnotator, setDescription, setID, setLinkedAnnotation, setLinkedChannel, setLinkedDataset, setLinkedDetector, setLinkedDichroic, setLinkedExperimenter, setLinkedExperimenterGroup, setLinkedFilter, setLinkedFolder, setLinkedImage, setLinkedInstrument, setLinkedLightPath, setLinkedLightSource, setLinkedObjective, setLinkedPlane, setLinkedPlate, setLinkedPlateAcquisition, setLinkedProject, setLinkedReagent, setLinkedROI, setLinkedScreen, setLinkedShape, setLinkedWell, setNamespace, sizeOfLinkedAnnotationList, sizeOfLinkedChannelList, sizeOfLinkedDatasetList, sizeOfLinkedDetectorList, sizeOfLinkedDichroicList, sizeOfLinkedExperimenterGroupList, sizeOfLinkedExperimenterList, sizeOfLinkedFilterList, sizeOfLinkedFolderList, sizeOfLinkedImageList, sizeOfLinkedInstrumentList, sizeOfLinkedLightPathList, sizeOfLinkedLightSourceList, sizeOfLinkedObjectiveList, sizeOfLinkedPlaneList, sizeOfLinkedPlateAcquisitionList, sizeOfLinkedPlateList, sizeOfLinkedProjectList, sizeOfLinkedReagentList, sizeOfLinkedROIList, sizeOfLinkedScreenList, sizeOfLinkedShapeList, sizeOfLinkedWellList, unlinkAnnotation, unlinkChannel, unlinkDataset, unlinkDetector, unlinkDichroic, unlinkExperimenter, unlinkExperimenterGroup, unlinkFilter, unlinkFolder, unlinkImage, unlinkInstrument, unlinkLightPath, unlinkLightSource, unlinkObjective, unlinkPlane, unlinkPlate, unlinkPlateAcquisition, unlinkProject, unlinkReagent, unlinkROI, unlinkScreen, unlinkShape, unlinkWell
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Methods inherited from class ome.xml.model.AbstractOMEModelObject
getChildrenByTagName, stripNamespacePrefix
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Field Detail
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NAMESPACE
public static final String NAMESPACE
- See Also:
- Constant Field Values
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Constructor Detail
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FileAnnotation
public FileAnnotation()
Default constructor.
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FileAnnotation
public FileAnnotation(Element element, OMEModel model) throws EnumerationException
Constructs FileAnnotation recursively from an XML DOM tree.- Parameters:
element
- Root of the XML DOM tree to construct a model object graph from.model
- Handler for the OME model which keeps track of instances and references seen during object population.- Throws:
EnumerationException
- If there is an error instantiating an enumeration during model object creation.
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FileAnnotation
public FileAnnotation(FileAnnotation orig)
Copy constructor.
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Method Detail
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update
public void update(Element element, OMEModel model) throws EnumerationException
Updates FileAnnotation recursively from an XML DOM tree. NOTE: No properties are removed, only added or updated.- Specified by:
update
in interfaceOMEModelObject
- Overrides:
update
in classTypeAnnotation
- Parameters:
element
- Root of the XML DOM tree to construct a model object graph from.model
- Handler for the OME model which keeps track of instances and references seen during object population.- Throws:
EnumerationException
- If there is an error instantiating an enumeration during model object creation.
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link
public boolean link(Reference reference, OMEModelObject o)
Description copied from interface:OMEModelObject
Link a given OME model object to this model object.- Specified by:
link
in interfaceOMEModelObject
- Overrides:
link
in classTypeAnnotation
- Parameters:
reference
- The type qualifier for the reference. This should be the corresponding reference type foro
. If, for example,o
is of typeImage
,reference
MUST be of typeImageRef
.o
- Model object to link to.- Returns:
true
if this model object was able to handle the reference,false
otherwise.
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getBinaryFile
public BinaryFile getBinaryFile()
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setBinaryFile
public void setBinaryFile(BinaryFile binaryFile)
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getStructuredAnnotations
public StructuredAnnotations getStructuredAnnotations()
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setStructuredAnnotations
public void setStructuredAnnotations(StructuredAnnotations structuredAnnotations_BackReference)
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asXMLElement
public Element asXMLElement(Document document)
Description copied from interface:OMEModelObject
Takes the entire object hierarchy and produces an XML DOM tree.- Specified by:
asXMLElement
in interfaceOMEModelObject
- Overrides:
asXMLElement
in classTypeAnnotation
- Parameters:
document
- Destination document for element creation, etc.- Returns:
- XML DOM tree root element for this model object.
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asXMLElement
public Element asXMLElement(Document document, Element FileAnnotation_element)
Description copied from class:AbstractOMEModelObject
Takes the entire object hierarchy and produced an XML DOM tree taking into account class hierarchy.- Overrides:
asXMLElement
in classTypeAnnotation
- Parameters:
document
- Destination document for element creation, etc.FileAnnotation_element
- Element from the subclass. Ifnull
a new element will be created of this class.- Returns:
element
populated with properties from this class.
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