#include <ome/xml/model/Plate.h>

Inheritance diagram for ome::xml::model::Plate:

Collaboration diagram for ome::xml::model::Plate:

Public Member Functions
	Plate ()
	Default constructor.

	Plate (const Plate &copy)
	Copy constructor. More...

virtual	~Plate ()
	Destructor.

const std::string &	elementName () const
	Get the element name of this model object. More...

bool	validElementName (const std::string &name) const
	Check if a given element name is valid for processing by this model object. More...

virtual void	update (const common::xml::dom::Element &element, ome::xml::model::OMEModel &model)
	Update the object hierarchy recursively from an XML DOM tree. More...

bool	link (ome::compat::shared_ptr< Reference > &reference, ome::compat::shared_ptr< ome::xml::model::OMEModelObject > &object)
	Link a given OME model object to this model object. More...

ome::compat::shared_ptr< std::string >	getStatus ()
	Get the Status property. More...

const ome::compat::shared_ptr< std::string >	getStatus () const
	Get the Status property. More...

void	setStatus (ome::compat::shared_ptr< std::string > &status)
	Set the Status property. More...

ome::compat::shared_ptr< ome::xml::model::primitives::PositiveInteger >	getRows ()
	Get the Rows property. More...

const ome::compat::shared_ptr< ome::xml::model::primitives::PositiveInteger >	getRows () const
	Get the Rows property. More...

void	setRows (ome::compat::shared_ptr< ome::xml::model::primitives::PositiveInteger > &rows)
	Set the Rows property. More...

ome::compat::shared_ptr< std::string >	getExternalIdentifier ()
	Get the ExternalIdentifier property. More...

const ome::compat::shared_ptr< std::string >	getExternalIdentifier () const
	Get the ExternalIdentifier property. More...

void	setExternalIdentifier (ome::compat::shared_ptr< std::string > &externalIdentifier)
	Set the ExternalIdentifier property. More...

ome::compat::shared_ptr< ome::xml::model::enums::NamingConvention >	getRowNamingConvention ()
	Get the RowNamingConvention property. More...

const ome::compat::shared_ptr< ome::xml::model::enums::NamingConvention >	getRowNamingConvention () const
	Get the RowNamingConvention property. More...

void	setRowNamingConvention (ome::compat::shared_ptr< ome::xml::model::enums::NamingConvention > &rowNamingConvention)
	Set the RowNamingConvention property. More...

ome::compat::shared_ptr< ome::xml::model::enums::NamingConvention >	getColumnNamingConvention ()
	Get the ColumnNamingConvention property. More...

const ome::compat::shared_ptr< ome::xml::model::enums::NamingConvention >	getColumnNamingConvention () const
	Get the ColumnNamingConvention property. More...

void	setColumnNamingConvention (ome::compat::shared_ptr< ome::xml::model::enums::NamingConvention > &columnNamingConvention)
	Set the ColumnNamingConvention property. More...

ome::compat::shared_ptr< ome::xml::model::primitives::NonNegativeInteger >	getFieldIndex ()
	Get the FieldIndex property. More...

const ome::compat::shared_ptr< ome::xml::model::primitives::NonNegativeInteger >	getFieldIndex () const
	Get the FieldIndex property. More...

void	setFieldIndex (ome::compat::shared_ptr< ome::xml::model::primitives::NonNegativeInteger > &fieldIndex)
	Set the FieldIndex property. More...

ome::compat::shared_ptr< double >	getWellOriginY ()
	Get the WellOriginY property. More...

const ome::compat::shared_ptr< double >	getWellOriginY () const
	Get the WellOriginY property. More...

void	setWellOriginY (ome::compat::shared_ptr< double > &wellOriginY)
	Set the WellOriginY property. More...

ome::compat::shared_ptr< double >	getWellOriginX ()
	Get the WellOriginX property. More...

const ome::compat::shared_ptr< double >	getWellOriginX () const
	Get the WellOriginX property. More...

void	setWellOriginX (ome::compat::shared_ptr< double > &wellOriginX)
	Set the WellOriginX property. More...

const std::string &	getID () const
	Get the ID property. More...

void	setID (const std::string &id)
	Set the ID property. More...

ome::compat::shared_ptr< ome::xml::model::primitives::PositiveInteger >	getColumns ()
	Get the Columns property. More...

const ome::compat::shared_ptr< ome::xml::model::primitives::PositiveInteger >	getColumns () const
	Get the Columns property. More...

void	setColumns (ome::compat::shared_ptr< ome::xml::model::primitives::PositiveInteger > &columns)
	Set the Columns property. More...

ome::compat::shared_ptr< std::string >	getName ()
	Get the Name property. More...

const ome::compat::shared_ptr< std::string >	getName () const
	Get the Name property. More...

void	setName (ome::compat::shared_ptr< std::string > &name)
	Set the Name property. More...

ome::compat::shared_ptr< std::string >	getDescription ()
	Get the Description property. More...

const ome::compat::shared_ptr< std::string >	getDescription () const
	Get the Description property. More...

void	setDescription (ome::compat::shared_ptr< std::string > &description)
	Set the Description property. More...

std::vector< ome::compat::shared_ptr< ome::xml::model::Well > >::size_type	sizeOfWellList () const
	Get size of linked Well list. More...

std::vector< ome::compat::shared_ptr< ome::xml::model::Well > > &	getWellList ()
	Get the Well list. More...

const std::vector< ome::compat::shared_ptr< ome::xml::model::Well > > &	getWellList () const
	Get the Well list. More...

ome::compat::shared_ptr< ome::xml::model::Well > &	getWell (std::vector< ome::compat::shared_ptr< ome::xml::model::Well > >::size_type index)
	Get Well. More...

const ome::compat::shared_ptr< ome::xml::model::Well > &	getWell (std::vector< ome::compat::shared_ptr< ome::xml::model::Well > >::size_type index) const
	Get Well. More...

void	setWell (std::vector< ome::compat::shared_ptr< ome::xml::model::Well > >::size_type index, ome::compat::shared_ptr< ome::xml::model::Well > &well)
	Set Well. More...

void	addWell (ome::compat::shared_ptr< ome::xml::model::Well > &well)
	Add Well. More...

void	removeWell (ome::compat::shared_ptr< ome::xml::model::Well > &well)
	Remove Well. More...

OMEModelObject::indexed_container< ome::xml::model::Annotation, ome::compat::weak_ptr >::type::size_type	sizeOfLinkedAnnotationList () const
	Get size of linked Annotation list. More...

OMEModelObject::indexed_container< ome::xml::model::Annotation, ome::compat::weak_ptr >::type	getLinkedAnnotationList () const
	Get the linked Annotation list. More...

const ome::compat::weak_ptr< ome::xml::model::Annotation > &	getLinkedAnnotation (OMEModelObject::indexed_container< ome::xml::model::Annotation, ome::compat::weak_ptr >::type::size_type index) const
	Get linked Annotation. More...

const ome::compat::weak_ptr< ome::xml::model::Annotation > &	setLinkedAnnotation (OMEModelObject::indexed_container< ome::xml::model::Annotation, ome::compat::weak_ptr >::type::size_type index, const ome::compat::shared_ptr< ome::xml::model::Annotation > &annotation)
	Set linked Annotation. More...

bool	linkAnnotation (const ome::compat::shared_ptr< ome::xml::model::Annotation > &annotation)
	Link Annotation. More...

bool	unlinkAnnotation (const ome::compat::shared_ptr< ome::xml::model::Annotation > &annotation)
	Unlink Annotation. More...

std::vector< ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > >::size_type	sizeOfPlateAcquisitionList () const
	Get size of linked PlateAcquisition list. More...

std::vector< ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > > &	getPlateAcquisitionList ()
	Get the PlateAcquisition list. More...

const std::vector< ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > > &	getPlateAcquisitionList () const
	Get the PlateAcquisition list. More...

ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > &	getPlateAcquisition (std::vector< ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > >::size_type index)
	Get PlateAcquisition. More...

const ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > &	getPlateAcquisition (std::vector< ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > >::size_type index) const
	Get PlateAcquisition. More...

void	setPlateAcquisition (std::vector< ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > >::size_type index, ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > &plateAcquisition)
	Set PlateAcquisition. More...

void	addPlateAcquisition (ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > &plateAcquisition)
	Add PlateAcquisition. More...

void	removePlateAcquisition (ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > &plateAcquisition)
	Remove PlateAcquisition. More...

OMEModelObject::indexed_container< ome::xml::model::Screen, ome::compat::weak_ptr >::type::size_type	sizeOfLinkedScreenList () const
	Get size of linked Screen list. More...

OMEModelObject::indexed_container< ome::xml::model::Screen, ome::compat::weak_ptr >::type	getLinkedScreenList () const
	Get the linked Screen list. More...

const ome::compat::weak_ptr< ome::xml::model::Screen > &	getLinkedScreen (OMEModelObject::indexed_container< ome::xml::model::Screen, ome::compat::weak_ptr >::type::size_type index) const
	Get linked Screen. More...

const ome::compat::weak_ptr< ome::xml::model::Screen > &	setLinkedScreen (OMEModelObject::indexed_container< ome::xml::model::Screen, ome::compat::weak_ptr >::type::size_type index, const ome::compat::shared_ptr< ome::xml::model::Screen > &screen_BackReference)
	Set linked Screen. More...

bool	linkScreen (const ome::compat::shared_ptr< ome::xml::model::Screen > &screen_BackReference)
	Link Screen. More...

bool	unlinkScreen (const ome::compat::shared_ptr< ome::xml::model::Screen > &screen_BackReference)
	Unlink Screen. More...

virtual common::xml::dom::Element	asXMLElement (common::xml::dom::Document &document) const
	Transform the object hierarchy rooted at this element to XML. More...

const std::string &	getXMLNamespace () const
	Get the XML namespace for this model object. More...

Public Member Functions inherited from ome::xml::model::detail::OMEModelObject
virtual	~OMEModelObject ()
	Destructor.

virtual void	update (const common::xml::dom::Element &element,::ome::xml::model::OMEModel &model)
	Update the object hierarchy recursively from an XML DOM tree. More...

virtual bool	link (ome::compat::shared_ptr< Reference > &reference, ome::compat::shared_ptr< ::ome::xml::model::OMEModelObject > &object)
	Link a given OME model object to this model object. More...

Public Member Functions inherited from ome::xml::model::OMEModelObject
virtual bool	link (ome::compat::shared_ptr< Reference > &reference, ome::compat::shared_ptr< OMEModelObject > &object)=0
	Link a given OME model object to this model object. More...

Static Public Member Functions
static ome::compat::shared_ptr< Plate >	create (const common::xml::dom::Element &element, ome::xml::model::OMEModel &model)
	Create a Plate model object from DOM element. More...

Static Public Member Functions inherited from ome::xml::model::detail::OMEModelObject
static std::vector< common::xml::dom::Element >	getChildrenByTagName (const common::xml::dom::Element &parent, const std::string &name)
	Retrieve all the children of an element that have a given tag name. More...

static std::string	stripNamespacePrefix (const std::string &value)
	Strip the namespace prefix from a tag name. More...

Protected Member Functions
virtual common::xml::dom::Element	asXMLElementInternal (common::xml::dom::Document &document, common::xml::dom::Element &element) const
	Transform the object hierarchy rooted at this element to XML. More...

Protected Member Functions inherited from ome::xml::model::detail::OMEModelObject
	OMEModelObject (const std::string &objectType="OMEModelObject")
	Constructor.

	OMEModelObject (const OMEModelObject &copy)
	Copy constructor. More...

template<class C , typename T >
bool	contains (const C &container, const ome::compat::shared_ptr< T > &element)
	Check if a container contains a particular element. More...

Protected Member Functions inherited from ome::xml::model::OMEModelObject
	OMEModelObject ()
	Constructor.

Private Attributes
ome::compat::shared_ptr< std::string >	status
	Status property.

ome::compat::shared_ptr< ome::xml::model::primitives::PositiveInteger >	rows
	Rows property.

ome::compat::shared_ptr< std::string >	externalIdentifier
	ExternalIdentifier property.

ome::compat::shared_ptr< ome::xml::model::enums::NamingConvention >	rowNamingConvention
	RowNamingConvention property.

ome::compat::shared_ptr< ome::xml::model::enums::NamingConvention >	columnNamingConvention
	ColumnNamingConvention property.

ome::compat::shared_ptr< ome::xml::model::primitives::NonNegativeInteger >	fieldIndex
	FieldIndex property.

ome::compat::shared_ptr< double >	wellOriginY
	WellOriginY property.

ome::compat::shared_ptr< double >	wellOriginX
	WellOriginX property.

std::string	id
	ID property.

ome::compat::shared_ptr< ome::xml::model::primitives::PositiveInteger >	columns
	Columns property.

ome::compat::shared_ptr< std::string >	name
	Name property.

ome::compat::shared_ptr< std::string >	description
	Description property.

std::vector< ome::compat::shared_ptr< ome::xml::model::Well > >	wells
	Well property (occurs more than once)

OMEModelObject::indexed_container< ome::xml::model::Annotation, ome::compat::weak_ptr >::type	annotationLinks
	AnnotationRef reference (occurs more than once)

std::vector< ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > >	plateAcquisitions
	PlateAcquisition property (occurs more than once)

OMEModelObject::indexed_container< ome::xml::model::Screen, ome::compat::weak_ptr >::type	screenLinks
	Screen_BackReference back reference (occurs more than once)

Additional Inherited Members
Protected Attributes inherited from ome::xml::model::detail::OMEModelObject
ome::common::Logger	logger
	Message logger.

Detailed Description

Plate model object.

Constructor & Destructor Documentation

ome::xml::model::Plate::Plate ( const Plate & copy )

Copy constructor.

Parameters

copy	the Plate to copy.

Member Function Documentation

void ome::xml::model::Plate::addPlateAcquisition ( ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > & plateAcquisition )

Add PlateAcquisition.

Parameters

plateAcquisition the PlateAcquisition to add.

Todo:

Return list position?

Detect and handle duplicates?

References plateAcquisitions.

Referenced by update().

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void ome::xml::model::Plate::addWell ( ome::compat::shared_ptr< ome::xml::model::Well > & well )

Add Well.

Parameters

well	the Well to add.

Todo:

Return list position?

Detect and handle duplicates?

References wells.

Referenced by update().

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common::xml::dom::Element ome::xml::model::Plate::asXMLElement ( common::xml::dom::Document & document ) const

virtual

Transform the object hierarchy rooted at this element to XML.

Parameters

document document for element creation

Returns: an XML DOM tree root element for this model object.

Implements ome::xml::model::OMEModelObject.

References asXMLElementInternal(), and ome::common::xml::dom::Document::createElementNS().

common::xml::dom::Element ome::xml::model::Plate::asXMLElementInternal	(	common::xml::dom::Document &	document,
		common::xml::dom::Element &	element
	)		const

protectedvirtual

Transform the object hierarchy rooted at this element to XML.

This internal implementation of asXMLelement also requires an XML element, which must not be null, or may be instantiated and passed from superclasses.

Parameters

document	XML document for element creation.
element	XML element for setting model data.

Returns: an XML DOM tree root element for this model object.

Implements ome::xml::model::detail::OMEModelObject.

References annotationLinks, ome::common::xml::dom::Node::appendChild(), ome::xml::model::detail::OMEModelObject::asXMLElementInternal(), columnNamingConvention, columns, ome::common::xml::dom::Document::createElementNS(), description, externalIdentifier, fieldIndex, id, name, plateAcquisitions, rowNamingConvention, rows, ome::common::xml::dom::Element::setAttribute(), status, wellOriginX, wellOriginY, and wells.

Referenced by asXMLElement().

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ome::compat::shared_ptr< Plate > ome::xml::model::Plate::create	(	const common::xml::dom::Element &	element,
		ome::xml::model::OMEModel &	model
	)

static

Create a Plate model object from DOM element.

Parameters

element	root of the XML DOM tree to from which to construct the model object graph.
model	handler for the OME model used to track instances and references seen during the update.

Exceptions

EnumerationException if there is an error instantiating an enumeration during model object creation, or ModelException if there are any consistency or validity errors found during processing.

Returns: a new model object.

Referenced by ome::xml::model::OME::update().

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const std::string & ome::xml::model::Plate::elementName ( ) const

virtual

Get the element name of this model object.

This will be the most-derived class name.

Returns: the element type.

Implements ome::xml::model::OMEModelObject.

ome::compat::shared_ptr< ome::xml::model::enums::NamingConvention > ome::xml::model::Plate::getColumnNamingConvention ( )

Get the ColumnNamingConvention property.

Returns: the ColumnNamingConvention property.

References columnNamingConvention.

const ome::compat::shared_ptr< ome::xml::model::enums::NamingConvention > ome::xml::model::Plate::getColumnNamingConvention ( ) const

Get the ColumnNamingConvention property.

Returns: the ColumnNamingConvention property.

References columnNamingConvention.

ome::compat::shared_ptr< ome::xml::model::primitives::PositiveInteger > ome::xml::model::Plate::getColumns ( )

Get the Columns property.

Returns: the Columns property.

References columns.

const ome::compat::shared_ptr< ome::xml::model::primitives::PositiveInteger > ome::xml::model::Plate::getColumns ( ) const

Get the Columns property.

Returns: the Columns property.

References columns.

ome::compat::shared_ptr< std::string > ome::xml::model::Plate::getDescription ( )

Get the Description property.

Returns: the Description property.

References description.

const ome::compat::shared_ptr< std::string > ome::xml::model::Plate::getDescription ( ) const

Get the Description property.

Returns: the Description property.

References description.

ome::compat::shared_ptr< std::string > ome::xml::model::Plate::getExternalIdentifier ( )

Get the ExternalIdentifier property.

Returns: the ExternalIdentifier property.

References externalIdentifier.

const ome::compat::shared_ptr< std::string > ome::xml::model::Plate::getExternalIdentifier ( ) const

Get the ExternalIdentifier property.

Returns: the ExternalIdentifier property.

References externalIdentifier.

ome::compat::shared_ptr< ome::xml::model::primitives::NonNegativeInteger > ome::xml::model::Plate::getFieldIndex ( )

Get the FieldIndex property.

Returns: the FieldIndex property.

References fieldIndex.

const ome::compat::shared_ptr< ome::xml::model::primitives::NonNegativeInteger > ome::xml::model::Plate::getFieldIndex ( ) const

Get the FieldIndex property.

Returns: the FieldIndex property.

References fieldIndex.

const std::string & ome::xml::model::Plate::getID ( ) const

Get the ID property.

Returns: the ID property.

References id.

Referenced by update().

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const ome::compat::weak_ptr< ome::xml::model::Annotation > & ome::xml::model::Plate::getLinkedAnnotation ( OMEModelObject::indexed_container< ome::xml::model::Annotation, ome::compat::weak_ptr >::type::size_type index ) const

Get linked Annotation.

Parameters

index the index number of the Annotation.

Returns: a weak pointer to the Annotation.

Exceptions

std::out_of_range if the index is invalid.

References annotationLinks.

OMEModelObject::indexed_container< ome::xml::model::Annotation, ome::compat::weak_ptr >::type ome::xml::model::Plate::getLinkedAnnotationList ( ) const

Get the linked Annotation list.

Returns: a reference to the list.

References annotationLinks.

const ome::compat::weak_ptr< ome::xml::model::Screen > & ome::xml::model::Plate::getLinkedScreen ( OMEModelObject::indexed_container< ome::xml::model::Screen, ome::compat::weak_ptr >::type::size_type index ) const

Get linked Screen.

Parameters

index the index number of the Screen.

Returns: a weak pointer to the Screen.

Exceptions

std::out_of_range if the index is invalid.

References screenLinks.

OMEModelObject::indexed_container< ome::xml::model::Screen, ome::compat::weak_ptr >::type ome::xml::model::Plate::getLinkedScreenList ( ) const

Get the linked Screen list.

Returns: a reference to the list.

References screenLinks.

ome::compat::shared_ptr< std::string > ome::xml::model::Plate::getName ( )

Get the Name property.

Returns: the Name property.

References name.

const ome::compat::shared_ptr< std::string > ome::xml::model::Plate::getName ( ) const

Get the Name property.

Returns: the Name property.

References name.

ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > & ome::xml::model::Plate::getPlateAcquisition ( std::vector< ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > >::size_type index )

Get PlateAcquisition.

Parameters

index the index number of the PlateAcquisition.

Returns: the PlateAcquisition.

Exceptions

std::out_of_range if the index is invalid.

References plateAcquisitions.

const ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > & ome::xml::model::Plate::getPlateAcquisition ( std::vector< ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > >::size_type index ) const

Get PlateAcquisition.

Parameters

index the index number of the PlateAcquisition.

Returns: the PlateAcquisition.

Exceptions

std::out_of_range if the index is invalid.

References plateAcquisitions.

std::vector< ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > > & ome::xml::model::Plate::getPlateAcquisitionList ( )

Get the PlateAcquisition list.

Returns: a reference to the list.

References plateAcquisitions.

const std::vector< ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > > & ome::xml::model::Plate::getPlateAcquisitionList ( ) const

Get the PlateAcquisition list.

Returns: a reference to the list.

References plateAcquisitions.

ome::compat::shared_ptr< ome::xml::model::enums::NamingConvention > ome::xml::model::Plate::getRowNamingConvention ( )

Get the RowNamingConvention property.

Returns: the RowNamingConvention property.

References rowNamingConvention.

const ome::compat::shared_ptr< ome::xml::model::enums::NamingConvention > ome::xml::model::Plate::getRowNamingConvention ( ) const

Get the RowNamingConvention property.

Returns: the RowNamingConvention property.

References rowNamingConvention.

ome::compat::shared_ptr< ome::xml::model::primitives::PositiveInteger > ome::xml::model::Plate::getRows ( )

Get the Rows property.

Returns: the Rows property.

References rows.

const ome::compat::shared_ptr< ome::xml::model::primitives::PositiveInteger > ome::xml::model::Plate::getRows ( ) const

Get the Rows property.

Returns: the Rows property.

References rows.

ome::compat::shared_ptr< std::string > ome::xml::model::Plate::getStatus ( )

Get the Status property.

Returns: the Status property.

References status.

const ome::compat::shared_ptr< std::string > ome::xml::model::Plate::getStatus ( ) const

Get the Status property.

Returns: the Status property.

References status.

ome::compat::shared_ptr< ome::xml::model::Well > & ome::xml::model::Plate::getWell ( std::vector< ome::compat::shared_ptr< ome::xml::model::Well > >::size_type index )

Get Well.

Parameters

index the index number of the Well.

Returns: the Well.

Exceptions

std::out_of_range if the index is invalid.

References wells.

const ome::compat::shared_ptr< ome::xml::model::Well > & ome::xml::model::Plate::getWell ( std::vector< ome::compat::shared_ptr< ome::xml::model::Well > >::size_type index ) const

Get Well.

Parameters

index the index number of the Well.

Returns: the Well.

Exceptions

std::out_of_range if the index is invalid.

References wells.

std::vector< ome::compat::shared_ptr< ome::xml::model::Well > > & ome::xml::model::Plate::getWellList ( )

Get the Well list.

Returns: a reference to the list.

References wells.

const std::vector< ome::compat::shared_ptr< ome::xml::model::Well > > & ome::xml::model::Plate::getWellList ( ) const

Get the Well list.

Returns: a reference to the list.

References wells.

ome::compat::shared_ptr< double > ome::xml::model::Plate::getWellOriginX ( )

Get the WellOriginX property.

Returns: the WellOriginX property.

References wellOriginX.

const ome::compat::shared_ptr< double > ome::xml::model::Plate::getWellOriginX ( ) const

Get the WellOriginX property.

Returns: the WellOriginX property.

References wellOriginX.

ome::compat::shared_ptr< double > ome::xml::model::Plate::getWellOriginY ( )

Get the WellOriginY property.

Returns: the WellOriginY property.

References wellOriginY.

const ome::compat::shared_ptr< double > ome::xml::model::Plate::getWellOriginY ( ) const

Get the WellOriginY property.

Returns: the WellOriginY property.

References wellOriginY.

const std::string & ome::xml::model::Plate::getXMLNamespace ( ) const

virtual

Get the XML namespace for this model object.

Returns: the XML namespace.

Implements ome::xml::model::OMEModelObject.

bool ome::xml::model::Plate::link	(	ome::compat::shared_ptr< Reference > &	reference,
		ome::compat::shared_ptr< ome::xml::model::OMEModelObject > &	object
	)

Link a given OME model object to this model object.

Parameters

reference	type qualifier for the reference. This should be the corresponding reference type for object. If, for example, object is of type Image, reference must be of type ImageRef.
object	Model object to link to.

Returns: true if this model object was able to handle the reference, otherwise false.

Todo:: the use of reference to provide type information for the type of object is unconventional and quite possibly unnecessary–a simple string or type_info would suffice for what it's being used for, if it's needed at all. Is this true for all cases? The implementation also needs to do strict checking of the object type; it's not currently failing if it's of the wrong type. This applies to all generated model objects implementing this interface.

Todo:: This bit is silly; why do we have two dynamic_casts here.

References annotationLinks, ome::xml::model::detail::OMEModelObject::link(), ome::xml::model::Annotation::linkPlate(), ome::xml::model::detail::OMEModelObject::logger, and name.

bool ome::xml::model::Plate::linkAnnotation ( const ome::compat::shared_ptr< ome::xml::model::Annotation > & annotation )

Link Annotation.

Parameters

annotation the Annotation to link.

Returns: true if the object was added to the internal annotationLinks list, otherwise false.

Todo:: Why have a return value here; what is it used for? Is this an artifact of the Java API?

References annotationLinks.

bool ome::xml::model::Plate::linkScreen ( const ome::compat::shared_ptr< ome::xml::model::Screen > & screen_BackReference )

Link Screen.

Parameters

screen_BackReference the Screen to link.

Returns: true if the object was added to the internal screenLinks list, otherwise false.

Todo:: Why have a return value here; what is it used for? Is this an artifact of the Java API?

References screenLinks.

Referenced by ome::xml::model::Screen::link().

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void ome::xml::model::Plate::removePlateAcquisition ( ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > & plateAcquisition )

Remove PlateAcquisition.

Parameters

plateAcquisition the PlateAcquisition to remove.

Todo:

Doesn't the removal break the indexing?

Does the removal deal with multiple instances; we aren't preventing duplicates on insertion.

References plateAcquisitions.

void ome::xml::model::Plate::removeWell ( ome::compat::shared_ptr< ome::xml::model::Well > & well )

Remove Well.

Parameters

well	the Well to remove.

Todo:

Doesn't the removal break the indexing?

Does the removal deal with multiple instances; we aren't preventing duplicates on insertion.

References wells.

void ome::xml::model::Plate::setColumnNamingConvention ( ome::compat::shared_ptr< ome::xml::model::enums::NamingConvention > & columnNamingConvention )

Set the ColumnNamingConvention property.

Parameters

columnNamingConvention the value to set.

References columnNamingConvention.

Referenced by update().

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void ome::xml::model::Plate::setColumns ( ome::compat::shared_ptr< ome::xml::model::primitives::PositiveInteger > & columns )

Set the Columns property.

Parameters

columns the value to set.

References columns.

Referenced by update().

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void ome::xml::model::Plate::setDescription ( ome::compat::shared_ptr< std::string > & description )

Set the Description property.

Parameters

description the value to set.

References description.

Referenced by update().

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void ome::xml::model::Plate::setExternalIdentifier ( ome::compat::shared_ptr< std::string > & externalIdentifier )

Set the ExternalIdentifier property.

Parameters

externalIdentifier the value to set.

References externalIdentifier.

Referenced by update().

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void ome::xml::model::Plate::setFieldIndex ( ome::compat::shared_ptr< ome::xml::model::primitives::NonNegativeInteger > & fieldIndex )

Set the FieldIndex property.

Parameters

fieldIndex the value to set.

References fieldIndex.

Referenced by update().

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void ome::xml::model::Plate::setID ( const std::string & id )

Set the ID property.

Parameters

id	the value to set.

References id.

Referenced by update().

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const ome::compat::weak_ptr< ome::xml::model::Annotation > & ome::xml::model::Plate::setLinkedAnnotation	(	OMEModelObject::indexed_container< ome::xml::model::Annotation, ome::compat::weak_ptr >::type::size_type	index,
		const ome::compat::shared_ptr< ome::xml::model::Annotation > &	annotation
	)

Set linked Annotation.

Note: The index must be valid.

Parameters

index	the index number of the Annotation.
annotation	the Annotation to set.

Returns: a weak pointer to the Annotation.

Exceptions

std::out_of_range if the index is invalid.

References annotationLinks.

const ome::compat::weak_ptr< ome::xml::model::Screen > & ome::xml::model::Plate::setLinkedScreen	(	OMEModelObject::indexed_container< ome::xml::model::Screen, ome::compat::weak_ptr >::type::size_type	index,
		const ome::compat::shared_ptr< ome::xml::model::Screen > &	screen_BackReference
	)

Set linked Screen.

Note: The index must be valid.

Parameters

index	the index number of the Screen.
screen_BackReference	the Screen to set.

Returns: a weak pointer to the Screen.

Exceptions

std::out_of_range if the index is invalid.

References screenLinks.

void ome::xml::model::Plate::setName ( ome::compat::shared_ptr< std::string > & name )

Set the Name property.

Parameters

name	the value to set.

References name.

Referenced by update().

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void ome::xml::model::Plate::setPlateAcquisition	(	std::vector< ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > >::size_type	index,
		ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > &	plateAcquisition
	)

Set PlateAcquisition.

Parameters

index	the index number of the PlateAcquisition.
plateAcquisition	the PlateAcquisition to set.

Exceptions

std::out_of_range if the index is invalid.

References plateAcquisitions.

void ome::xml::model::Plate::setRowNamingConvention ( ome::compat::shared_ptr< ome::xml::model::enums::NamingConvention > & rowNamingConvention )

Set the RowNamingConvention property.

Parameters

rowNamingConvention the value to set.

References rowNamingConvention.

Referenced by update().

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void ome::xml::model::Plate::setRows ( ome::compat::shared_ptr< ome::xml::model::primitives::PositiveInteger > & rows )

Set the Rows property.

Parameters

rows	the value to set.

References rows.

Referenced by update().

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void ome::xml::model::Plate::setStatus ( ome::compat::shared_ptr< std::string > & status )

Set the Status property.

Parameters

status the value to set.

References status.

Referenced by update().

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void ome::xml::model::Plate::setWell	(	std::vector< ome::compat::shared_ptr< ome::xml::model::Well > >::size_type	index,
		ome::compat::shared_ptr< ome::xml::model::Well > &	well
	)

Set Well.

Parameters

index	the index number of the Well.
well	the Well to set.

Exceptions

std::out_of_range if the index is invalid.

References wells.

void ome::xml::model::Plate::setWellOriginX ( ome::compat::shared_ptr< double > & wellOriginX )

Set the WellOriginX property.

Parameters

wellOriginX the value to set.

References wellOriginX.

Referenced by update().

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void ome::xml::model::Plate::setWellOriginY ( ome::compat::shared_ptr< double > & wellOriginY )

Set the WellOriginY property.

Parameters

wellOriginY the value to set.

References wellOriginY.

Referenced by update().

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OMEModelObject::indexed_container< ome::xml::model::Annotation, ome::compat::weak_ptr >::type::size_type ome::xml::model::Plate::sizeOfLinkedAnnotationList ( ) const

Get size of linked Annotation list.

Returns: the size of the list.

References annotationLinks.

OMEModelObject::indexed_container< ome::xml::model::Screen, ome::compat::weak_ptr >::type::size_type ome::xml::model::Plate::sizeOfLinkedScreenList ( ) const

Get size of linked Screen list.

Returns: the size of the list.

References screenLinks.

std::vector< ome::compat::shared_ptr< ome::xml::model::PlateAcquisition > >::size_type ome::xml::model::Plate::sizeOfPlateAcquisitionList ( ) const

Get size of linked PlateAcquisition list.

Returns: the size of the list.

References plateAcquisitions.

std::vector< ome::compat::shared_ptr< ome::xml::model::Well > >::size_type ome::xml::model::Plate::sizeOfWellList ( ) const

Get size of linked Well list.

Returns: the size of the list.

References wells.

bool ome::xml::model::Plate::unlinkAnnotation ( const ome::compat::shared_ptr< ome::xml::model::Annotation > & annotation )

Unlink Annotation.

Parameters

annotation the Annotation to unlink.

Returns: true if the Annotation was unlinked, otherwise false if the Annotation was not linked and could hence not be unlinked.

Todo:

Does the return value serve any useful purpose? Is this also inherited Java API?

Doesn't the removal break the indexing?

Does the removal deal with multiple instances; we aren't preventing duplicates on insertion.

References annotationLinks.

bool ome::xml::model::Plate::unlinkScreen ( const ome::compat::shared_ptr< ome::xml::model::Screen > & screen_BackReference )

Unlink Screen.

Parameters

screen_BackReference the Screen to unlink.

Returns: true if the Screen was unlinked, otherwise false if the Screen was not linked and could hence not be unlinked.

Todo:

Does the return value serve any useful purpose? Is this also inherited Java API?

Doesn't the removal break the indexing?

Does the removal deal with multiple instances; we aren't preventing duplicates on insertion.

References screenLinks.

void ome::xml::model::Plate::update	(	const common::xml::dom::Element &	element,
		ome::xml::model::OMEModel &	model
	)

virtual

Update the object hierarchy recursively from an XML DOM tree.

Note: No properties are removed, only added or updated.

Parameters

element	root of the XML DOM tree to from which to construct the model object graph.
model	handler for the OME model used to track instances and references seen during the update.

Exceptions

EnumerationException if there is an error instantiating an enumeration during model object creation, or ModelException if there are any consistency or validity errors found during processing.

Implements ome::xml::model::OMEModelObject.

References ome::xml::model::OMEModel::addModelObject(), addPlateAcquisition(), ome::xml::model::OMEModel::addReference(), addWell(), ome::xml::model::PlateAcquisition::create(), ome::xml::model::Well::create(), ome::common::xml::dom::Element::getAttribute(), ome::xml::model::detail::OMEModelObject::getChildrenByTagName(), getID(), ome::common::xml::dom::Element::getTagName(), ome::common::xml::dom::Element::hasAttribute(), ome::xml::model::detail::OMEModelObject::logger, setColumnNamingConvention(), setColumns(), setDescription(), setExternalIdentifier(), setFieldIndex(), setID(), setName(), setRowNamingConvention(), setRows(), setStatus(), setWellOriginX(), setWellOriginY(), ome::xml::model::detail::OMEModelObject::stripNamespacePrefix(), ome::xml::model::detail::OMEModelObject::update(), and validElementName().