#include <CLReactionGlyph.h>

Inheritance diagram for CLGeneralGlyph:

Public Member Functions
void	addReferenceGlyph (CLReferenceGlyph *glyph)

void	addSubglyph (CLGraphicalObject *glyph)

virtual bool	applyData (const CData &data, CUndoData::CChangeSet &changes)

	CLGeneralGlyph (const CLGeneralGlyph &src, const CDataContainer *pParent)

	CLGeneralGlyph (const GraphicalObject &sbml, const std::map< std::string, std::string > &modelmap, std::map< std::string, std::string > &layoutmap, const CDataContainer *pParent=NO_PARENT)

	CLGeneralGlyph (const std::string &name="GeneralGlyph", const CDataContainer *pParent=NO_PARENT)

virtual CLGraphicalObject *	clone () const

virtual void	exportToSBML (GraphicalObject g, const std::map< const CDataObject , SBase * > &copasimodelmap, std::map< std::string, const SBase * > &sbmlIDs, std::map< const CLBase , const SBase > &layoutmap) const

CDataVector< CLReferenceGlyph > &	getListOfReferenceGlyphs ()

const CDataVector< CLReferenceGlyph > &	getListOfReferenceGlyphs () const

CDataVector< CLGraphicalObject > &	getListOfSubglyphs ()

const CDataVector< CLGraphicalObject > &	getListOfSubglyphs () const

virtual void	moveBy (const CLPoint &p)

CLGeneralGlyph &	operator= (const CLGeneralGlyph &rhs)

void	print (std::ostream *ostream) const

virtual CData	toData () const

Public Member Functions inherited from CLGlyphWithCurve
	CLGlyphWithCurve (const CLGlyphWithCurve &src, const CDataContainer *pParent)

	CLGlyphWithCurve (const GraphicalObject &sbml, const std::map< std::string, std::string > &modelmap, std::map< std::string, std::string > &layoutmap, const CDataContainer *pParent=NO_PARENT)

	CLGlyphWithCurve (const std::string &name="ReferenceGlyph", const CDataContainer *pParent=NO_PARENT)

CLCurve &	getCurve ()

const CLCurve &	getCurve () const

CLGlyphWithCurve &	operator= (const CLGlyphWithCurve &rhs)

void	setCurve (const CLCurve &c)

Public Member Functions inherited from CLGraphicalObject
	CLGraphicalObject (const CLGraphicalObject &src, const CDataContainer *pParent)

	CLGraphicalObject (const GraphicalObject &sbml, std::map< std::string, std::string > &layoutmap, const CDataContainer *pParent=NO_PARENT)

	CLGraphicalObject (const std::string &name="GraphicalObject", const CDataContainer *pParent=NO_PARENT)

virtual void	exportToSBML (GraphicalObject sbmlobject, const std::map< const CDataObject , SBase * > &copasimodelmap, std::map< std::string, const SBase * > &sbmlIDs) const

CLBoundingBox &	getBoundingBox ()

const CLBoundingBox &	getBoundingBox () const

const CLDimensions &	getDimensions () const

const C_FLOAT64 &	getHeight () const

virtual const std::string &	getKey () const

CDataObject *	getModelObject () const

std::string	getModelObjectDisplayName (bool regular=true, bool richtext=false) const

const std::string &	getModelObjectKey () const

std::string	getModelObjectName () const

const std::string &	getObjectRole () const

const CLPoint &	getPosition () const

const C_FLOAT64 &	getWidth () const

const C_FLOAT64 &	getX () const

const C_FLOAT64 &	getY () const

bool	hasValidModelReference () const

CLGraphicalObject &	operator= (const CLGraphicalObject &rhs)

void	setBoundingBox (const CLBoundingBox &bb)

void	setDimensions (const CLDimensions &d)

void	setHeight (const C_FLOAT64 &h)

void	setModelObjectKey (const std::string &k)

void	setObjectRole (const std::string &role)

void	setPosition (const CLPoint &p)

void	setWidth (const C_FLOAT64 &w)

void	setX (const C_FLOAT64 &x)

void	setY (const C_FLOAT64 &y)

	~CLGraphicalObject ()

Public Member Functions inherited from CLBase
	CLBase ()

	CLBase (const CLBase &b)

	CLBase (const SBase &)

const std::string &	getTag () const

bool	hasTag () const

void	setTag (const std::string &tag)

virtual	~CLBase ()

Public Member Functions inherited from CDataContainer
virtual bool	add (CDataObject *pObject, const bool &adopt=true)

virtual bool	appendDeletedDependentData (CUndoData &undoData) const

	CDataContainer (const CDataContainer &src, const CDataContainer *pParent)

	CDataContainer (const std::string &name, const CDataContainer *pParent=NO_PARENT, const std::string &type="CN", const CFlags< Flag > &flag=CFlags< Flag >::None)

virtual void	createUndoData (CUndoData &undoData, const CUndoData::Type &type, const CData &oldData=CData(), const CCore::Framework &framework=CCore::Framework::ParticleNumbers) const override

virtual std::string	getChildObjectUnits (const CDataObject *pObject) const

void	getDescendants (CDataObject::DataObjectSet &descendants, const bool &recursive=false) const

virtual size_t	getIndex (const CDataObject *pObject) const

virtual const CObjectInterface *	getObject (const CCommonName &cn) const override

virtual objectMap &	getObjects ()

virtual const objectMap &	getObjects () const

virtual const std::string	getUnits () const override

virtual const CDataObject *	getValueObject () const override

virtual CUndoObjectInterface *	insert (const CData &data) override

void	objectRenamed (CDataObject *pObject, const std::string &oldName)

virtual bool	remove (CDataObject *pObject)

virtual	~CDataContainer ()

Public Member Functions inherited from CDataObject
void	addIssue (const CIssue &issue)

void	addReference (const CDataContainer *pReference)

virtual void	calculateValue () override

	CDataObject (const CDataObject &src, const CDataContainer *pParent=NULL)

virtual void	destruct () override

virtual CCommonName	getCN () const override

virtual const CDataObject *	getDataObject () const override

CDataContainer *	getObjectAncestor (const std::string &type) const

CDataModel *	getObjectDataModel () const

virtual std::string	getObjectDisplayName () const override

const CObjectInterface *	getObjectFromCN (const CCommonName &cn) const

const std::string &	getObjectName () const

CDataContainer *	getObjectParent () const

const std::string &	getObjectType () const

virtual const CObjectInterface::ObjectSet &	getPrerequisites () const override

virtual const CValidity &	getValidity () const override

virtual void *	getValuePointer () const override

bool	hasFlag (const Flag &flag) const

virtual bool	isPrerequisiteForContext (const CObjectInterface *pObject, const CCore::SimulationContextFlag &context, const CObjectInterface::ObjectSet &changedObjects) const override

bool	prerequisitsContains (const DataObjectSet &objects) const

void	removeIssue (const CIssue &issue)

void	removeReference (const CDataContainer *pReference)

bool	setObjectName (const std::string &name)

virtual bool	setObjectParent (const CDataContainer *pParent)

void	validityChanged (const CValidity &changedValidity) override

void	validityRemoved (const CValidity &changedValidity)

virtual	~CDataObject ()

Public Member Functions inherited from CObjectInterface
	CObjectInterface ()

	CObjectInterface (const CObjectInterface &src)

virtual	~CObjectInterface ()

Public Member Functions inherited from CUndoObjectInterface
	CUndoObjectInterface ()

	CUndoObjectInterface (const CUndoObjectInterface &src)

bool	generateUuid ()

const xg::Guid &	getUuid () const

bool	setUuid (const std::string &uuid)

bool	setUuid (const xg::Guid &uuid)

virtual void	updateIndex (const size_t &index, const CUndoObjectInterface *pUndoObject)

virtual	~CUndoObjectInterface ()

Static Public Member Functions
static CLGeneralGlyph *	fromData (const CData &data, CUndoObjectInterface *pParent)

Static Public Member Functions inherited from CLGraphicalObject
static CLGraphicalObject *	fromData (const CData &data, CUndoObjectInterface *pParent)

Static Public Member Functions inherited from CDataContainer
static CDataContainer *	fromData (const CData &data, CUndoObjectInterface *pParent)

Static Public Member Functions inherited from CDataObject
static CDataObject *	fromData (const CData &data, CUndoObjectInterface *pParent)

static void	sanitizeObjectName (std::string &name)

Static Public Member Functions inherited from CObjectInterface
static const CDataObject *	DataObject (const CObjectInterface *pInterface)

static CObjectInterface *	GetObjectFromCN (const ContainerList &listOfContainer, const CCommonName &objName)

Static Public Member Functions inherited from CUndoObjectInterface
template<class CType >
static CType *	fromData (const CData &, CUndoObjectInterface *)

Protected Member Functions
	CLGeneralGlyph (const CLGeneralGlyph &src)

Protected Member Functions inherited from CLGlyphWithCurve
	CLGlyphWithCurve (const CLGlyphWithCurve &src)

Protected Member Functions inherited from CLGraphicalObject
	CLGraphicalObject (const CLGraphicalObject &src)

Protected Member Functions inherited from CDataContainer
template<class CType >
CDataMatrixReference< CType > *	addMatrixReference (const std::string &name, CType &reference, const CFlags< Flag > &flag=CFlags< Flag >::None)

template<class CType >
CDataObjectReference< CType > *	addObjectReference (const std::string &name, CType &reference, const CFlags< Flag > &flag=CFlags< Flag >::None)

template<class CType >
CDataVectorReference< CType > *	addVectorReference (const std::string &name, CType &reference, const CFlags< Flag > &flag=CFlags< Flag >::None)

	CDataContainer (const CDataContainer &src)

void	initObjects ()

Protected Member Functions inherited from CDataObject
	CDataObject ()

	CDataObject (const std::string &name, const CDataContainer pParent=static_cast< CDataContainer >((void *) 0), const std::string &type="CN", const CFlags< Flag > &flag=CFlags< Flag >::None)

Protected Attributes
CDataVector< CLReferenceGlyph >	mvReferences

CDataVector< CLGraphicalObject >	mvSubglyphs

Protected Attributes inherited from CLGlyphWithCurve
CLCurve	mCurve

Protected Attributes inherited from CLGraphicalObject
CLBoundingBox	mBBox

std::string	mKey

std::string	mModelObjectKey

std::string	mObjectRole

Protected Attributes inherited from CLBase
std::string	mTag

Protected Attributes inherited from CDataContainer
objectMap	mObjects

Protected Attributes inherited from CDataObject
ObjectSet	mPrerequisits

std::set< CDataContainer * >	mReferences

Protected Attributes inherited from CObjectInterface
CValidity	mValidity

Friends
std::ostream &	operator<< (std::ostream &os, const CLGeneralGlyph &g)

Additional Inherited Members
Public Types inherited from CDataContainer
typedef CDataObjectMap	objectMap

Public Types inherited from CDataObject
typedef std::set< const CDataObject * >	DataObjectSet

enum	Flag { Container , Vector , Matrix , NameVector , Reference , ValueBool , ValueInt , ValueInt64 , ValueDbl , NonUniqueName , StaticString , ValueString , Separator , DisplayName , ModelEntity , Array , DataModel , Root , Gui , __SIZE }

Public Types inherited from CObjectInterface
typedef std::vector< const CDataContainer * >	ContainerList

typedef std::set< const CObjectInterface * >	ObjectSet

Static Public Attributes inherited from CDataContainer
static const CObjectInterface::ContainerList	EmptyList

Detailed Description

general glyph

Constructor & Destructor Documentation

◆ CLGeneralGlyph() [1/4]

CLGeneralGlyph::CLGeneralGlyph ( const CLGeneralGlyph & src )

protected

Referenced by CLGeneralGlyph(), clone(), and fromData().

◆ CLGeneralGlyph() [2/4]

CLGeneralGlyph::CLGeneralGlyph	(	const std::string &	name = `"GeneralGlyph"`,
		const CDataContainer *	pParent = `NO_PARENT`
	)

◆ CLGeneralGlyph() [3/4]

CLGeneralGlyph::CLGeneralGlyph	(	const CLGeneralGlyph &	src,
		const CDataContainer *	pParent
	)

References addSubglyph(), mvSubglyphs, and CDataVector< CType >::size().

◆ CLGeneralGlyph() [4/4]

CLGeneralGlyph::CLGeneralGlyph	(	const GraphicalObject &	sbml,
		const std::map< std::string, std::string > &	modelmap,
		std::map< std::string, std::string > &	layoutmap,
		const CDataContainer *	pParent = `NO_PARENT`
	)

constructor from libsbml object

References addReferenceGlyph(), addSubglyph(), C_INT32, CLGeneralGlyph(), and CLGraphicalObject::setModelObjectKey().

Member Function Documentation

◆ addReferenceGlyph()

void CLGeneralGlyph::addReferenceGlyph ( CLReferenceGlyph * glyph )

add Glyph to general glyph. The general glyph takes ownership of the glyph.

References CDataVector< CType >::add(), and mvReferences.

Referenced by CLGeneralGlyph(), CCopasiSpringLayout::createLayout(), and operator=().

◆ addSubglyph()

void CLGeneralGlyph::addSubglyph ( CLGraphicalObject * glyph )

add sub glyph to general glyph. The general glyph takes ownership of the glyph.

References CDataVector< CType >::add(), and mvSubglyphs.

Referenced by CLGeneralGlyph(), and operator=().

◆ applyData()

bool CLGeneralGlyph::applyData	(	const CData &	data,
		CUndoData::CChangeSet &	changes
	)

virtual

Apply the provided data to the object

Parameters

const CData & data

Returns: bool success

Reimplemented from CLGraphicalObject.

References fatalError.

◆ clone()

CLGraphicalObject * CLGeneralGlyph::clone ( ) const

virtual

Reimplemented from CLGraphicalObject.

References CLGeneralGlyph().

◆ exportToSBML()

void CLGeneralGlyph::exportToSBML	(	GraphicalObject *	g,
		const std::map< const CDataObject , SBase > &	copasimodelmap,
		std::map< std::string, const SBase * > &	sbmlIDs,
		std::map< const CLBase , const SBase > &	layoutmap
	)		const

virtual

this exports the general glyph to a generic SBML GraphicalObject (throwing away most of the information) This should be removed once libsbml supports general glyphs.

References CLCompartmentGlyph::exportToSBML(), CLCurve::exportToSBML(), exportToSBML(), CLGraphicalObject::exportToSBML(), CLReferenceGlyph::exportToSBML(), CLMetabGlyph::exportToSBML(), CLTextGlyph::exportToSBML(), CLGraphicalObject::getModelObject(), CDataVector< CType >::insert(), CDataContainer::insert(), CLGlyphWithCurve::mCurve, mvReferences, mvSubglyphs, and CDataVector< CType >::size().

Referenced by exportToSBML(), and CLayout::exportToSBML().

◆ fromData()

CLGeneralGlyph * CLGeneralGlyph::fromData	(	const CData &	data,
		CUndoObjectInterface *	pParent
	)

static

Static method to create a CDataObject based on the provided data

Parameters

const CData & data

Returns: CLGeneralGlyph * pDataObject

References CLGeneralGlyph(), CData::getProperty(), NO_PARENT, CData::OBJECT_NAME, and CDataValue::toString().

◆ getListOfReferenceGlyphs() [1/2]

CDataVector< CLReferenceGlyph > & CLGeneralGlyph::getListOfReferenceGlyphs ( )

References mvReferences.

◆ getListOfReferenceGlyphs() [2/2]

const CDataVector< CLReferenceGlyph > & CLGeneralGlyph::getListOfReferenceGlyphs ( ) const

References mvReferences.

Referenced by CLayout::calculateBoundingBox(), CLayout::CLayout(), CLayout::exportToSBML(), CCopasiSpringLayout::finalizeState(), CLLayoutRenderer::getObjectsAt(), CLLayoutRenderer::getObjectsInBoundingBox(), and CCopasiSpringLayout::getPotential().

◆ getListOfSubglyphs() [1/2]

CDataVector< CLGraphicalObject > & CLGeneralGlyph::getListOfSubglyphs ( )

References mvSubglyphs.

◆ getListOfSubglyphs() [2/2]

const CDataVector< CLGraphicalObject > & CLGeneralGlyph::getListOfSubglyphs ( ) const

References mvSubglyphs.

Referenced by CLayout::CLayout(), and CLLayoutRenderer::getObjectsInBoundingBox().

◆ moveBy()

void CLGeneralGlyph::moveBy ( const CLPoint & p )

virtual

Reimplemented from CLGlyphWithCurve.

References CLGlyphWithCurve::moveBy(), mvReferences, mvSubglyphs, and CDataVector< CType >::size().

◆ operator=()

CLGeneralGlyph & CLGeneralGlyph::operator= ( const CLGeneralGlyph & rhs )

assignment operator. makes a deep copy

References addReferenceGlyph(), addSubglyph(), CDataVector< CType >::clear(), mvReferences, mvSubglyphs, NO_PARENT, CLGlyphWithCurve::operator=(), and CDataVector< CType >::size().

◆ print()

void CLGeneralGlyph::print ( std::ostream * ostream ) const

virtual

This is the output method for any object. The default implementation provided with CDataObject uses the ostream operator<< of the object to print the object.To override this default behavior one needs to reimplement the virtual print function.

Parameters

std::ostream * ostream

Reimplemented from CLGlyphWithCurve.

◆ toData()

CData CLGeneralGlyph::toData ( ) const

virtual

Retrieve the data describing the object

Returns: CData data

Reimplemented from CLGraphicalObject.

References fatalError.

Friends And Related Function Documentation

◆ operator<<

std::ostream& operator<<	(	std::ostream &	os,
		const CLGeneralGlyph &	g
	)

friend

insert operator

Member Data Documentation

◆ mvReferences

CDataVector<CLReferenceGlyph> CLGeneralGlyph::mvReferences

protected

Referenced by addReferenceGlyph(), exportToSBML(), getListOfReferenceGlyphs(), moveBy(), and operator=().

◆ mvSubglyphs

CDataVector<CLGraphicalObject> CLGeneralGlyph::mvSubglyphs

protected

Referenced by addSubglyph(), CLGeneralGlyph(), exportToSBML(), getListOfSubglyphs(), moveBy(), and operator=().

The documentation for this class was generated from the following files:

Public Member Functions

Static Public Member Functions

Protected Member Functions

Protected Attributes

Friends

Additional Inherited Members

Detailed Description

Constructor & Destructor Documentation

◆ CLGeneralGlyph() [1/4]

◆ CLGeneralGlyph() [2/4]

◆ CLGeneralGlyph() [3/4]

◆ CLGeneralGlyph() [4/4]

Member Function Documentation

◆ addReferenceGlyph()

◆ addSubglyph()

◆ applyData()

◆ clone()

◆ exportToSBML()

◆ fromData()

◆ getListOfReferenceGlyphs() [1/2]

◆ getListOfReferenceGlyphs() [2/2]

◆ getListOfSubglyphs() [1/2]

◆ getListOfSubglyphs() [2/2]

◆ moveBy()

◆ operator=()

◆ print()

◆ toData()

Friends And Related Function Documentation

◆ operator<<

Member Data Documentation

◆ mvReferences

◆ mvSubglyphs