Package ome.xml.model
Class XMLAnnotation
- java.lang.Object
-
- ome.xml.model.AbstractOMEModelObject
-
- ome.xml.model.Annotation
-
- ome.xml.model.TextAnnotation
-
- ome.xml.model.XMLAnnotation
-
- All Implemented Interfaces:
OMEModelObject
public class XMLAnnotation extends TextAnnotation
-
-
Constructor Summary
Constructors Constructor Description XMLAnnotation()
Default constructor.XMLAnnotation(XMLAnnotation orig)
Copy constructor.XMLAnnotation(Element element, OMEModel model)
Constructs XMLAnnotation recursively from an XML DOM tree.
-
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 XMLAnnotation_element)
Takes the entire object hierarchy and produced an XML DOM tree taking into account class hierarchy.StructuredAnnotations
getStructuredAnnotations()
String
getValue()
boolean
link(Reference reference, OMEModelObject o)
Link a given OME model object to this model object.void
setStructuredAnnotations(StructuredAnnotations structuredAnnotations_BackReference)
void
setValue(String value)
void
update(Element element, OMEModel model)
Updates XMLAnnotation 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
-
Methods inherited from class ome.xml.model.AbstractOMEModelObject
getChildrenByTagName, stripNamespacePrefix
-
-
-
-
Field Detail
-
NAMESPACE
public static final String NAMESPACE
- See Also:
- Constant Field Values
-
-
Constructor Detail
-
XMLAnnotation
public XMLAnnotation()
Default constructor.
-
XMLAnnotation
public XMLAnnotation(Element element, OMEModel model) throws EnumerationException
Constructs XMLAnnotation 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.
-
XMLAnnotation
public XMLAnnotation(XMLAnnotation orig)
Copy constructor.
-
-
Method Detail
-
update
public void update(Element element, OMEModel model) throws EnumerationException
Updates XMLAnnotation recursively from an XML DOM tree. NOTE: No properties are removed, only added or updated.- Specified by:
update
in interfaceOMEModelObject
- Overrides:
update
in classTextAnnotation
- 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.
-
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 classTextAnnotation
- 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.
-
getValue
public String getValue()
-
setValue
public void setValue(String value)
-
getStructuredAnnotations
public StructuredAnnotations getStructuredAnnotations()
-
setStructuredAnnotations
public void setStructuredAnnotations(StructuredAnnotations structuredAnnotations_BackReference)
-
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 classTextAnnotation
- Parameters:
document
- Destination document for element creation, etc.- Returns:
- XML DOM tree root element for this model object.
-
asXMLElement
public Element asXMLElement(Document document, Element XMLAnnotation_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 classTextAnnotation
- Parameters:
document
- Destination document for element creation, etc.XMLAnnotation_element
- Element from the subclass. Ifnull
a new element will be created of this class.- Returns:
element
populated with properties from this class.
-
-