Uses of Class
biouml.model.DiagramElement

Packages that use DiagramElement

biouml.model
biouml.model.dynamics
biouml.model.util
biouml.plugins.matlab
biouml.plugins.sbml
biouml.plugins.simulation
biouml.plugins.simulation.java
biouml.standard.diagram
biouml.standard.filter
biouml.workbench.diagram

Uses of DiagramElement in biouml.model

Subclasses of DiagramElement in biouml.model

class	Compartment General definition of the compartment as a container for nodes and edges between them.
class	Diagram
class	Edge Edge is directed relation between two diagram nodes, called "input" and "output".
class	EquivalentNodeGroup Group of equivalent nodes.
class	Node Diagram node element

Methods in biouml.model that return DiagramElement

DiagramElement	SemanticController.createInstance(Compartment compartment, java.lang.Class type, java.awt.Point point, ViewEditorPane viewEditor)
DiagramElement	Role.getDiagramElement()
DiagramElement	Node.clone(Compartment newParent, java.lang.String newName)
DiagramElement	Edge.clone(Compartment newParent, java.lang.String newName)
DiagramElement	DiagramElement.clone(Compartment newParent, java.lang.String newName)
DiagramElement	Diagram.clone(DataCollection origin, java.lang.String newName)
DiagramElement	DefaultSemanticController.createInstance(Compartment compartment, java.lang.Class type, java.awt.Point point, ViewEditorPane viewEditor)
DiagramElement	Compartment.clone(Compartment newParent, java.lang.String newName)

Methods in biouml.model with parameters of type DiagramElement

boolean	SemanticController.canAccept(Compartment compartment, DiagramElement de)
boolean	SemanticController.remove(DiagramElement de) Removes the diagram element and all related edges.
boolean	SemanticController.isResizable(DiagramElement diagramElement)
Role	Role.clone(DiagramElement de) Creates copy of the object and asstiate it with specified diagram element.
void	DiagramViewBuilder.hideElement(DiagramElement element)
void	DiagramViewBuilder.removeElement(DiagramElement element)
boolean	DiagramTypeConverter.ConditionalConverter.isSuitable(DiagramElement de, DiagramType type)
protected void	DiagramTypeConverter.ConditionalConverter.message(java.lang.StringBuffer buf, DiagramElement de, Diagram diagram)
boolean	DefaultSemanticController.canAccept(Compartment compartment, DiagramElement de)
boolean	DefaultSemanticController.isResizable(DiagramElement diagramElement)
boolean	DefaultSemanticController.remove(DiagramElement de) Removes the diagram element and all related edges.
void	DefaultDiagramViewBuilder.hideElement(DiagramElement element)
void	DefaultDiagramViewBuilder.removeElement(DiagramElement element)
protected void	AbstractFilter.restoreView(DiagramElement de)

Uses of DiagramElement in biouml.model.dynamics

Fields in biouml.model.dynamics declared as DiagramElement

protected DiagramElement

VariableRole.diagramElement

Methods in biouml.model.dynamics that return DiagramElement

DiagramElement	VariableRole.getDiagramElement()
DiagramElement	EModelRoleSupport.getDiagramElement()

Methods in biouml.model.dynamics with parameters of type DiagramElement

static java.lang.String	VariableRole.createName(DiagramElement de) Returns name of DataElement including all compartment names.
Role	VariableRole.clone(DiagramElement de) Creates variable copy and assotiate it with specified diagram element.
Role	Equation.clone(DiagramElement de) Creates equation copy and assitiate it with specified diagram element.
Role	EModelRoleSupport.clone(DiagramElement de) Throws UnsupportedOperationException.
Role	EModel.clone(DiagramElement de) Unsupported yet.
java.lang.String	EModel.getQualifiedName(java.lang.String name, DiagramElement de) Resolves brief variable name to fully qualified variable name, using information from corresponding DiagramElement.
protected static void	DAEModelUtilities.fillVarASTMap(DiagramElement de, java.util.Map map, EModel emodel)

Constructors in biouml.model.dynamics with parameters of type DiagramElement

VariableRole(DataCollection origin, DiagramElement diagramElement, double initialValue)

VariableRole(DiagramElement diagramElement, double initialValue)

Transition(DiagramElement de)

State(DiagramElement de)

Function(DiagramElement diagramElement)

Event(DiagramElement de, java.lang.String name)

Event(DiagramElement de, java.lang.String trigger, java.lang.String delay, Assignment[] actions)

Equation(DiagramElement de, java.lang.String type, java.lang.String variable)

Equation(DiagramElement de, java.lang.String type, java.lang.String variable, java.lang.String formula)

EModelRoleSupport(DiagramElement diagramElement)

EModel(DiagramElement de)

Uses of DiagramElement in biouml.model.util

Methods in biouml.model.util with parameters of type DiagramElement

protected static void	DiagramXmlWriter.setTitle(org.w3c.dom.Element element, DiagramElement diagramElement)
protected static void	DiagramXmlWriter.setComment(org.w3c.dom.Element element, DiagramElement diagramElement)
protected void	DiagramXmlWriter.writeDiagramElement(org.w3c.dom.Element element, DiagramElement de)
protected static void	DiagramXmlReader.getTitle(org.w3c.dom.Element element, DiagramElement de)
protected void	DiagramXmlReader.writeDiagramElement(org.w3c.dom.Element element, DiagramElement de)

Uses of DiagramElement in biouml.plugins.matlab

Fields in biouml.plugins.matlab declared as DiagramElement

protected DiagramElement

MatlabErrorDialog.diagramElement

Constructors in biouml.plugins.matlab with parameters of type DiagramElement

MatlabErrorDialog(javax.swing.JDialog dialog, DiagramElement diagramElement, java.lang.String error)

MatlabErrorDialog(javax.swing.JFrame frame, DiagramElement diagramElement, java.lang.String error)

Uses of DiagramElement in biouml.plugins.sbml

Methods in biouml.plugins.sbml that return DiagramElement

DiagramElement

SbmlSemanticController.createInstance(Compartment parent, java.lang.Class type, java.awt.Point point, ViewEditorPane viewEditor) Creates diagram element for the specified kernel type, parent compartment and location.

Methods in biouml.plugins.sbml with parameters of type DiagramElement

protected java.lang.String	SbmlModelReader_21.readMath(org.w3c.dom.Element element, DiagramElement de)
protected java.lang.String	SbmlModelReader_11.readMath(java.lang.String formula, DiagramElement de)
boolean	SbmlModelReader.isSpecie(DiagramElement de)
boolean	SbmlModelReader.isReaction(DiagramElement de)

Uses of DiagramElement in biouml.plugins.simulation

Methods in biouml.plugins.simulation with parameters of type DiagramElement

java.lang.String	SimulationEngine.getQualifiedName(java.lang.String name, DiagramElement de) Resolves brief varibale name to fully qualified variable name.
protected void	SimulationEngine.initMath(DiagramElement de) Initialize variable types and equations map.
protected void	SimulationEngine.initAlgebraic(DiagramElement de)
protected void	SimulationEngine.parseEquation(DiagramElement de)

Uses of DiagramElement in biouml.plugins.simulation.java

Methods in biouml.plugins.simulation.java that return DiagramElement

DiagramElement

JavaSimulationEngine.processError(java.lang.String err, java.lang.String fileName, int row, int column)

Uses of DiagramElement in biouml.standard.diagram

Fields in biouml.standard.diagram declared as DiagramElement

protected DiagramElement

DiagramElementSelector.diagramElement

Methods in biouml.standard.diagram that return DiagramElement

DiagramElement	PathwaySimulationSemanticController.createInstance(Compartment parent, java.lang.Class type, java.awt.Point pt, ViewEditorPane viewEditor)
protected DiagramElement	PathwaySimulationSemanticController.createRule(Compartment parent, java.awt.Point pt, ViewEditorPane viewEditor)
DiagramElement	PathwaySemanticController.createInstance(Compartment parent, java.lang.Class type, java.awt.Point point, ViewEditorPane viewEditor)
DiagramElement	PathwaySemanticController.createDiagramElement(Base kernel, java.util.Set elements)
DiagramElement	DiagramElementSelector.getDiagramElement()

Methods in biouml.standard.diagram with parameters of type DiagramElement

protected void	PathwaySimulationDiagramViewBuilder.createReactionTitle(DiagramElement reactionNode, PathwayDiagramViewOptions options, java.awt.Graphics g)
protected Diagram	PathwaySimulationDiagramViewBuilder.getDiagram(DiagramElement de)
boolean	PathwaySemanticController.remove(DiagramElement de) Removes the diagram element and all related edges.
protected void	PathwayDiagramViewBuilder.createReactionTitle(DiagramElement reaction, PathwayDiagramViewOptions options, java.awt.Graphics g)
boolean	DiagramElementSelector.setDiagramElement(DiagramElement diagramElement)
boolean	DiagramElementSelector.isSuitable(DiagramElement de)

Uses of DiagramElement in biouml.standard.filter

Methods in biouml.standard.filter with parameters of type DiagramElement

Action	ValueActionFilter.getAction(DiagramElement de)
void	HighlightAction.apply(DiagramElement de)
void	HideAction.apply(DiagramElement de)
void	CompositeHighlightAction.apply(DiagramElement de)
protected void	BiopolimerDiagramFilter.restoreView(DiagramElement de)
Action	ActionFilter.getAction(DiagramElement de) Returns action, that should be applied to the specified diagram element, if it satisfies to the filter condition or null otherwise.
void	Action.apply(DiagramElement de) Apllies the action to the specified diagram element.

Uses of DiagramElement in biouml.workbench.diagram

Fields in biouml.workbench.diagram declared as DiagramElement

protected DiagramElement

ClipboardView.exploredDiagramElement

Methods in biouml.workbench.diagram that return DiagramElement

DiagramElement

DiagramElementInfo.getDiagramElement()

Constructors in biouml.workbench.diagram with parameters of type DiagramElement

DiagramElementInfo(DiagramElement diagramElement)