Uses of Interface
org.ginsim.core.graph.Graph

Packages that use Graph

Package	Description
org.ginsim	The base package for GINsim, with launcher classes.
org.ginsim.core.annotation	Manage annotations: bibliography, Database entries and links.
org.ginsim.core.graph	Define the main Graph interfaces, and a GraphManager to handle graph types
org.ginsim.core.graph.backend	Implementation of the graph backend.
org.ginsim.core.graph.dynamicgraph	State Transition Graphs, representing dynamical behaviours.
org.ginsim.core.graph.hierarchicaltransitiongraph
org.ginsim.core.graph.objectassociation	Handling objects associated to Graphs.
org.ginsim.core.graph.reducedgraph	Loop-free graphs where each node represents a strongly connected component of the original graph.
org.ginsim.core.graph.regulatorygraph	The regulatory graph is the main graph, it represents the model.
org.ginsim.core.graph.regulatorygraph.logicalfunction	Logical functions associated to nodes of the regulatory graph define their dynamical behaviour.
org.ginsim.core.graph.regulatorygraph.namedstates	Define states of a regulatory graph, which can be named and used as starting point for simulations.
org.ginsim.core.graph.regulatorygraph.perturbation	Perturbations to modify some parts of a model before analysis.
org.ginsim.core.graph.trapspacetree
org.ginsim.core.graph.tree	The Tree graph is a representation of a logical functions, allowing a graphical representation.
org.ginsim.core.graph.view	Define the layout and appearance of graph elements.
org.ginsim.core.graph.view.css	Customise Graph views through CSS-like commands.
org.ginsim.core.graph.view.style	Styles define visual properties for graph elements.
org.ginsim.core.io.parser	Some tools to build parsers and writers for xml and text formats
org.ginsim.core.notification	API for notifications: notifications, listener and a global manager to connect them
org.ginsim.core.notification.resolvable
org.ginsim.gui	Definition of the GUIManager: provide access to all opened windows
org.ginsim.gui.graph	Common GUI for all graphs, and definition of hooks for specialised parts.
org.ginsim.gui.graph.canvas	Custom implementation of the interactive view
org.ginsim.gui.graph.canvas.events
org.ginsim.gui.graph.regulatorygraph.initialstate	GUI for the definition and selection of states.
org.ginsim.gui.graph.view.style	GUI for the definition of styles associated to graph elements.
org.ginsim.gui.service	API for GUI services, and a manager to load them and integrate them in the shell.
org.ginsim.gui.shell	Define the main shell: graph windows and common dialogs
org.ginsim.gui.shell.actions	Define types of actions, which will be integrated in different parts of the shell.
org.ginsim.gui.shell.callbacks	Define the Actions behind the menu entries
org.ginsim.gui.shell.editpanel	Define edit panels: panels which follow graph selection events.
org.ginsim.gui.utils.dialog.stackdialog	Definition of StackDialog: a run dialog where the main panel can be changed.
org.ginsim.gui.utils.widgets	Some common widgets
org.ginsim.service.export.image
org.ginsim.service.export.struct
org.ginsim.service.layout
org.ginsim.service.tool.avatar.params
org.ginsim.service.tool.composition
org.ginsim.service.tool.graphcomparator
org.ginsim.service.tool.modelreduction
org.ginsim.service.tool.reg2dyn
org.ginsim.service.tool.reg2dyn.helpers
org.ginsim.service.tool.reg2dyn.htg
org.ginsim.service.tool.reg2dyn.limitedsimulation
org.ginsim.service.tool.scc
org.ginsim.servicegui.export.cadp
org.ginsim.servicegui.export.documentation
org.ginsim.servicegui.export.image
org.ginsim.servicegui.export.maboss
org.ginsim.servicegui.export.nusmv
org.ginsim.servicegui.export.petrinet
org.ginsim.servicegui.export.prism
org.ginsim.servicegui.export.reggraph
org.ginsim.servicegui.export.sat
org.ginsim.servicegui.export.struct
org.ginsim.servicegui.format.ginml
org.ginsim.servicegui.layout
org.ginsim.servicegui.tool.avatar
org.ginsim.servicegui.tool.circuit	search circuits in the regulatory graph.
org.ginsim.servicegui.tool.composition
org.ginsim.servicegui.tool.dataviewer
org.ginsim.servicegui.tool.decisionanalysis
org.ginsim.servicegui.tool.dynamicanalyser	the state transition graph
org.ginsim.servicegui.tool.graphcomparator
org.ginsim.servicegui.tool.interactionanalysis
org.ginsim.servicegui.tool.localgraph
org.ginsim.servicegui.tool.modelbooleanizer
org.ginsim.servicegui.tool.modelreduction
org.ginsim.servicegui.tool.modelreversion
org.ginsim.servicegui.tool.omddViz
org.ginsim.servicegui.tool.pathfinding
org.ginsim.servicegui.tool.polytopesViz
org.ginsim.servicegui.tool.reg2dyn	find the state transition graph from the regulatory one
org.ginsim.servicegui.tool.reg2dyn.limitedSimulation
org.ginsim.servicegui.tool.regulatorygraphanimation	animate the regulatory graph (by simply changing nodes and edge's colors) according to a path/state in the state transition graph.
org.ginsim.servicegui.tool.regulatorytreefunction
org.ginsim.servicegui.tool.scc	colorize the strongly connected components in a graph
org.ginsim.servicegui.tool.stableregions
org.ginsim.servicegui.tool.stablestates
org.ginsim.servicegui.tool.stateinregulatorygraph
org.ginsim.servicegui.tool.trapspace

Uses of Graph in org.ginsim

Methods in org.ginsim that return Graph

Modifier and Type	Method and Description
Graph<?,?>	ScriptLauncher.load(String filename) Open a graph from a file.
Graph<?,?>	ScriptLauncher.open(String filename) Deprecated. see ScriptLauncher.load(String)

Methods in org.ginsim with parameters of type Graph

Modifier and Type	Method and Description
Object	ScriptLauncher.associated(Graph<?,?> g, String key, boolean create) Get or create associated data.
Object	ScriptLauncher.associated(Graph g, String key) Get (existing) associated data

Uses of Graph in org.ginsim.core.annotation

Methods in org.ginsim.core.annotation with parameters of type Graph

Modifier and Type	Method and Description
void	Annotation.addLink(String s, Graph graph)
void	Annotation.delLink(String s, Graph graph)
BiblioList	BiblioManager.doCreate(Graph graph)
BiblioList	BiblioManager.doOpen(InputStream is, Graph graph)
void	Annotation.setLink(String s, int index, Graph graph)
void	AnnotationLink.setText(String s, Graph graph)

Constructors in org.ginsim.core.annotation with parameters of type Graph

Constructor and Description
AnnotationLink(String s, Graph graph)
BiblioList(Graph<?,?> graph, boolean parsing)

Uses of Graph in org.ginsim.core.graph

Classes in org.ginsim.core.graph with type parameters of type Graph

Modifier and Type	Class and Description
class	AbstractDerivedGraph<V,E extends Edge<V>,AG extends Graph<AV,AE>,AV,AE extends Edge<AV>> Base class for graphs which need an associated graph.
class	AbstractGraphFactory<G extends Graph<?,?>> Base class for Graph Factories.
interface	GraphAssociation<AG extends Graph<AV,AE>,AV,AE extends Edge<AV>> Defines a graph associated with the implementor of this interface.
interface	GraphFactory<G extends Graph<?,?>> Factory to open or create specialised graph instances.

Classes in org.ginsim.core.graph that implement Graph

Modifier and Type	Class and Description
class	AbstractDerivedGraph<V,E extends Edge<V>,AG extends Graph<AV,AE>,AV,AE extends Edge<AV>> Base class for graphs which need an associated graph.
class	AbstractGraph<V,E extends Edge<V>> Base class for graphs using a storage backend: it provides generic methods and storage abstraction.

Fields in org.ginsim.core.graph declared as Graph

Modifier and Type	Field and Description
protected AG	AbstractDerivedGraph.associatedGraph

Methods in org.ginsim.core.graph with type parameters of type Graph

Modifier and Type	Method and Description
<C extends Graph> C	GSGraphManager.getNewGraph(Class<C> graph_class) Create a new default graph of the given class
<C extends Graph> C	GSGraphManager.getNewGraph(Class<C> graph_class, Object... args)
<G extends Graph<?,?>> void	GSGraphManager.registerGraph(G graph, String file_path) Memorize the link between the graph and the path of the file the graph has been loaded from or saved to

Methods in org.ginsim.core.graph that return Graph

Modifier and Type	Method and Description
Graph	GSGraphManager.getGraphFromPath(String path) Return the graph associated to the given file path, if it exists
Graph<V,E>	GraphModel.getSubgraph(Collection<V> node, Collection<E> edges) Build a graph from the provided vertices and edges based on the current graph
abstract Graph<V,E>	AbstractGraph.getSubgraph(Collection<V> node, Collection<E> edges) Specialized method that build the sub-graph corresponding to the given lists of vertices and edges The returned graph contains clones of the given graph objects structured as they are in the current graph
Graph	GSGraphManager.open(File file)
Graph	GSGraphManager.open(Set set, File file)
Graph	GSGraphManager.open(String file_path) Retrieve the Graph stored in the file at the given file path

Methods in org.ginsim.core.graph with parameters of type Graph

Modifier and Type	Method and Description
void	GSGraphManager.close(Graph graph) Remove all the server side association to the graph
void	AbstractGraph.copyView(Graph<V,E> src, ViewCopyHelper<Graph<V,E>,V,E> helper)
void	Graph.copyView(Graph<V,E> src, ViewCopyHelper<Graph<V,E>,V,E> helper) Transfer view settings from a related graph.
protected abstract List<?>	AbstractGraph.doMerge(Graph<V,E> graph) Specialized method that execute the merging of the given graph with the current one Must be override at specialized graph level
String	GSGraphManager.getGraphPath(Graph graph) Return the path of the file the graph has been loaded from or saved to (if it exists)
GraphEventCascade	AbstractDerivedGraph.graphChanged(Graph g, GraphChangeType type, Object data)
protected abstract boolean	AbstractDerivedGraph.isAssociationValid(Graph<?,?> graph) test if a graph can be associated with this one.
List<?>	GraphModel.merge(Graph<V,E> graph) Merge the provided graph with the current one
List<?>	AbstractGraph.merge(Graph<V,E> graph) Launch the merge method on the specialized graph level, merging the current graph with the given one and fire a graph change event
void	GSGraphManager.registerGraph(Graph graph) register a graph without associated file path

Method parameters in org.ginsim.core.graph with type arguments of type Graph

Modifier and Type	Method and Description
void	AbstractGraph.copyView(Graph<V,E> src, ViewCopyHelper<Graph<V,E>,V,E> helper)
void	Graph.copyView(Graph<V,E> src, ViewCopyHelper<Graph<V,E>,V,E> helper) Transfer view settings from a related graph.

Constructors in org.ginsim.core.graph with parameters of type Graph

Constructor and Description
Edge(Graph<V,?> g, V source, V target) create a edge.

Uses of Graph in org.ginsim.core.graph.backend

Methods in org.ginsim.core.graph.backend with parameters of type Graph

Modifier and Type	Method and Description
static GraphBackend	JgraphtBackendImpl.getGraphBackend(Graph graph)

Constructors in org.ginsim.core.graph.backend with parameters of type Graph

Constructor and Description
NodeAttributeReaderImpl(StyleManager<V,E> styleManager, Graph<V,E> graph, GraphBackend<V,E> backend)

Uses of Graph in org.ginsim.core.graph.dynamicgraph

Subinterfaces of Graph in org.ginsim.core.graph.dynamicgraph

Modifier and Type	Interface and Description
interface	DynamicGraph the dynamic (state transition) graph.
interface	TransitionGraph<V,E extends Edge<V>>

Classes in org.ginsim.core.graph.dynamicgraph that implement Graph

Modifier and Type	Class and Description
class	DynamicGraphImpl Implementation of dynamical graphs.
class	TransitionGraphImpl<V,E extends Edge<V>>

Methods in org.ginsim.core.graph.dynamicgraph that return Graph

Modifier and Type	Method and Description
Graph	DynamicParser.getGraph()
Graph	DynamicGraphImpl.getSubgraph(Collection vertex, Collection edges)

Methods in org.ginsim.core.graph.dynamicgraph with parameters of type Graph

Modifier and Type	Method and Description
protected List	DynamicGraphImpl.doMerge(Graph otherGraph)
int[]	DynamicNode.getPattern(Graph<DynamicNode,Edge<DynamicNode>> graph)
String	DynamicNode.getPatternString(Graph<DynamicNode,Edge<DynamicNode>> graph)
protected boolean	DynamicGraphImpl.isAssociationValid(Graph<?,?> graph) Indicates if the given graph can be associated to the current one
void	DynamicParser.parse(File file, Set<String> set, Graph graph) create a new dynamical graph from a file.

Uses of Graph in org.ginsim.core.graph.hierarchicaltransitiongraph

Subinterfaces of Graph in org.ginsim.core.graph.hierarchicaltransitiongraph

Modifier and Type	Interface and Description
interface	HierarchicalTransitionGraph Hierarchical Transition Graphs provide a compact representation of the dynamical behaviour.

Classes in org.ginsim.core.graph.hierarchicaltransitiongraph that implement Graph

Modifier and Type	Class and Description
class	HierarchicalTransitionGraphImpl Implementation of the HTG interface

Methods in org.ginsim.core.graph.hierarchicaltransitiongraph that return Graph

Modifier and Type	Method and Description
Graph	HierarchicalTransitionGraphParser.getGraph()
Graph	HierarchicalTransitionGraphImpl.getSubgraph(Collection<HierarchicalNode> vertex, Collection<DecisionOnEdge> edges) Not used for this kind of graph: it's not interactively editable

Methods in org.ginsim.core.graph.hierarchicaltransitiongraph with parameters of type Graph

Modifier and Type	Method and Description
protected List	HierarchicalTransitionGraphImpl.doMerge(Graph otherGraph) not used for this kind of graph: it has no meaning
protected boolean	HierarchicalTransitionGraphImpl.isAssociationValid(Graph<?,?> graph) Indicates if the given graph can be associated to the current one

Uses of Graph in org.ginsim.core.graph.objectassociation

Methods in org.ginsim.core.graph.objectassociation with parameters of type Graph

Modifier and Type	Method and Description
void	ObjectAssociationManager.addObject(Graph graph, String key, Object obj) Allow to associate objects with a graph to retrieve them later.
T	GraphAssociatedObjectManager.doCreate(Graph graph) create the associated object for a graph
T	GraphAssociatedObjectManager.doOpen(InputStream is, Graph graph) open associated object.
void	BasicGraphAssociatedManager.doSave(OutputStreamWriter os, Graph graph)
void	GraphAssociatedObjectManager.doSave(OutputStreamWriter out, Graph graph) save the object associated with this graph.
void	ObjectAssociationManager.fireUserUpdate(Graph<?,?> graph, String oldKey, String newKey) Signal that a data user has been updated (removed or renamed)
void	ObjectAssociationManager.fireUserUpdate(Graph<?,?> graph, String prefix, String oldKey, String newKey) Signal that a data user has been updated (removed or renamed)
T	BasicGraphAssociatedManager.getObject(Graph graph)
T	GraphAssociatedObjectManager.getObject(Graph graph) get the existing associated object for a graph
Object	ObjectAssociationManager.getObject(Graph graph, String key, boolean create) Allow to associate objects with a graph to retrieve them later.
boolean	BasicGraphAssociatedManager.needSaving(Graph graph)
boolean	GraphAssociatedObjectManager.needSaving(Graph graph)
void	ObjectAssociationManager.removeAllObjects(Graph graph) Remove all references from associated objects
void	ObjectAssociationManager.removeObject(Graph graph, String key) remove an object previously associated to a graph with addObject(Object, Object).

Uses of Graph in org.ginsim.core.graph.reducedgraph

Classes in org.ginsim.core.graph.reducedgraph with type parameters of type Graph

Modifier and Type	Interface and Description
interface	ReducedGraph<AG extends Graph<AV,AE>,AV,AE extends Edge<AV>> Graph of the strongly connected components.
class	ReducedGraphFactory<G extends Graph<V,E>,V,E extends Edge<V>> Factory for the SCC graph.
class	ReducedGraphImpl<G extends Graph<V,E>,V,E extends Edge<V>> Implementation of the Reduced Graph.

Subinterfaces of Graph in org.ginsim.core.graph.reducedgraph

Modifier and Type	Interface and Description
interface	ReducedGraph<AG extends Graph<AV,AE>,AV,AE extends Edge<AV>> Graph of the strongly connected components.

Classes in org.ginsim.core.graph.reducedgraph that implement Graph

Modifier and Type	Class and Description
class	ReducedGraphImpl<G extends Graph<V,E>,V,E extends Edge<V>> Implementation of the Reduced Graph.

Methods in org.ginsim.core.graph.reducedgraph that return Graph

Modifier and Type	Method and Description
Graph	ReducedGraphParser.getGraph()
Graph	ReducedGraphImpl.getSubgraph(Collection vertex, Collection edges)

Methods in org.ginsim.core.graph.reducedgraph with parameters of type Graph

Modifier and Type	Method and Description
ReducedGraph	ReducedGraphFactory.create(Graph graph)
protected List	ReducedGraphImpl.doMerge(Graph otherGraph)
int	NodeReducedData.getType(Graph gm) Indicates the type of component.
String	NodeReducedData.getTypeName(Graph gm)
protected boolean	ReducedGraphImpl.isAssociationValid(Graph<?,?> graph) Indicates if the given graph can be associated to the current one
boolean	NodeReducedData.isTransient(Graph gm)
void	ReducedGraphParser.parse(File file, Set<String> set, Graph graph) create a new ReducedGraph from a file.

Uses of Graph in org.ginsim.core.graph.regulatorygraph

Subinterfaces of Graph in org.ginsim.core.graph.regulatorygraph

Modifier and Type	Interface and Description
interface	RegulatoryGraph The regulatory graph

Classes in org.ginsim.core.graph.regulatorygraph that implement Graph

Modifier and Type	Class and Description
class	RegulatoryGraphImpl Implementation of the RegulatoryGraph interface.

Methods in org.ginsim.core.graph.regulatorygraph that return Graph

Modifier and Type	Method and Description
Graph	RegulatoryParser.getGraph()
Graph	RegulatoryGraphImpl.getSubgraph(Collection<RegulatoryNode> v_vertex, Collection<RegulatoryMultiEdge> v_edges)

Methods in org.ginsim.core.graph.regulatorygraph with parameters of type Graph

Modifier and Type	Method and Description
void	RegulatoryMultiEdge.addEdge(Graph graph)
void	RegulatoryMultiEdge.addEdge(RegulatoryEdgeSign sign, Graph graph)
int	RegulatoryMultiEdge.addEdge(RegulatoryEdgeSign sign, int threshold, Graph graph)
protected List	RegulatoryGraphImpl.doMerge(Graph<RegulatoryNode,RegulatoryMultiEdge> otherGraph)
void	RegulatoryParser.parse(File file, Set set, Graph<?,?> graph) create a new regulatory graph from a file.
void	RegulatoryMultiEdge.rescanSign(Graph graph)
void	RegulatoryNode.setInput(boolean input, Graph graph)
void	RegulatoryNode.setOutput(boolean output, Graph graph)
void	RegulatoryMultiEdge.setSign(int index, RegulatoryEdgeSign sign, Graph graph) change the sign of a sub edge.

Uses of Graph in org.ginsim.core.graph.regulatorygraph.logicalfunction

Methods in org.ginsim.core.graph.regulatorygraph.logicalfunction with parameters of type Graph

Modifier and Type	Method and Description
void	LogicalParameter.setValue(int i, Graph graph) set value of the interaction

Uses of Graph in org.ginsim.core.graph.regulatorygraph.namedstates

Methods in org.ginsim.core.graph.regulatorygraph.namedstates with parameters of type Graph

Modifier and Type	Method and Description
NamedStatesHandler	NamedStatesManager.doCreate(Graph graph)
NamedStatesHandler	NamedStatesManager.doOpen(InputStream is, Graph graph)
void	NamedStatesManager.doSave(OutputStreamWriter os, Graph graph)

Constructors in org.ginsim.core.graph.regulatorygraph.namedstates with parameters of type Graph

Constructor and Description
NamedStatesHandler(Graph<?,?> graph)

Uses of Graph in org.ginsim.core.graph.regulatorygraph.perturbation

Methods in org.ginsim.core.graph.regulatorygraph.perturbation with parameters of type Graph

Modifier and Type	Method and Description
ListOfPerturbations	PerturbationManager.doCreate(Graph graph)
ListOfPerturbations	PerturbationManager.doOpen(InputStream is, Graph graph)
void	PerturbationManager.doSave(OutputStreamWriter os, Graph graph)

Uses of Graph in org.ginsim.core.graph.trapspacetree

Subinterfaces of Graph in org.ginsim.core.graph.trapspacetree

Modifier and Type	Interface and Description
interface	TrapSpaceInclusionDiagram Trap-space inclusion diagram provide an over-approximation of the attractor reachability landscape.

Classes in org.ginsim.core.graph.trapspacetree that implement Graph

Modifier and Type	Class and Description
class	TrapSpaceTreeImpl

Methods in org.ginsim.core.graph.trapspacetree that return Graph

Modifier and Type	Method and Description
Graph<TrapSpaceNode,TrapSpaceInclusion>	TrapSpaceTreeImpl.getSubgraph(Collection<TrapSpaceNode> node, Collection<TrapSpaceInclusion> edges)

Methods in org.ginsim.core.graph.trapspacetree with parameters of type Graph

Modifier and Type	Method and Description
protected List<?>	TrapSpaceTreeImpl.doMerge(Graph<TrapSpaceNode,TrapSpaceInclusion> graph)
protected boolean	TrapSpaceTreeImpl.isAssociationValid(Graph<?,?> graph)

Constructors in org.ginsim.core.graph.trapspacetree with parameters of type Graph

Constructor and Description
TrapSpaceInclusion(Graph<TrapSpaceNode,TrapSpaceInclusion> g, TrapSpaceNode source, TrapSpaceNode target)

Uses of Graph in org.ginsim.core.graph.tree

Subinterfaces of Graph in org.ginsim.core.graph.tree

Modifier and Type	Interface and Description
interface	Tree

Classes in org.ginsim.core.graph.tree that implement Graph

Modifier and Type	Class and Description
class	TreeImpl

Methods in org.ginsim.core.graph.tree that return Graph

Modifier and Type	Method and Description
Graph<TreeNode,TreeEdge>	TreeImpl.getSubgraph(Collection<TreeNode> vertex, Collection<TreeEdge> edges)

Methods in org.ginsim.core.graph.tree with parameters of type Graph

Modifier and Type	Method and Description
protected List<?>	TreeImpl.doMerge(Graph<TreeNode,TreeEdge> graph)

Constructors in org.ginsim.core.graph.tree with parameters of type Graph

Constructor and Description
TreeEdge(Graph g, TreeNode source, TreeNode target, int value)

Uses of Graph in org.ginsim.core.graph.view

Classes in org.ginsim.core.graph.view with type parameters of type Graph

Modifier and Type	Interface and Description
interface	ViewCopyHelper<G extends Graph<V,E>,V,E extends Edge<V>> Provide a mapping between the elements of two graphs, used to transfer visual properties.

Constructors in org.ginsim.core.graph.view with parameters of type Graph

Constructor and Description
GraphicalAttributesStore(Graph graph) Deprecated.

Uses of Graph in org.ginsim.core.graph.view.css

Methods in org.ginsim.core.graph.view.css with parameters of type Graph

Modifier and Type	Method and Description
void	CascadingStyleSheet.apply(Graph graph, CascadingStyleSheetManager cs) Apply this css on a graph using a CascadingStyleSheetManager Note this css needs to be compiled before
protected void	Colorizer.colorize(Graph<?,?> graph) Apply the selector on all the edges and nodes of the graph If you apply the style only on a known subset of edges/nodes, surcharging this method to be more specific could be more efficient.
void	Colorizer.doColorize(Graph<?,?> graph) Initialise the CascadingStyle to handle the original style save at the first call.
boolean	Colorizer.toggleColorize(Graph<?,?> graph) Call doColorize() if the graph is not already colored, undoColorize() otherwise.
void	Colorizer.undoColorize(Graph<?,?> graph) Supposing that the style have been saved, this function will restore the original style of all the edges/nodes if the selector respond to the the edges/nodes respectively.

Uses of Graph in org.ginsim.core.graph.view.style

Constructors in org.ginsim.core.graph.view.style with parameters of type Graph

Constructor and Description
StyleManager(Graph<V,E> g, GraphBackend<V,E> backend, GraphFactory factory) Create a style manager, defining default styles.

Uses of Graph in org.ginsim.core.io.parser

Classes in org.ginsim.core.io.parser with type parameters of type Graph

Modifier and Type	Class and Description
class	GINMLWriter<G extends Graph<V,E>,V,E extends Edge<V>> Base GINMLWriter class: it provides the common parts of a GINML file and hooks for specialised writers to add their graph-specific data.

Fields in org.ginsim.core.io.parser declared as Graph

Modifier and Type	Field and Description
protected G	GINMLWriter.graph

Methods in org.ginsim.core.io.parser that return Graph

Modifier and Type	Method and Description
abstract Graph	GsXMLHelper.getGraph()
Graph	GinmlParser.getGraph()
Graph	GinmlParser.parse(InputStream is, Set map)

Uses of Graph in org.ginsim.core.notification

Methods in org.ginsim.core.notification with parameters of type Graph

Modifier and Type	Method and Description
static void	NotificationManager.publishResolvableError(Object topic, String message, Graph graph, Object[] data, NotificationResolution resolution) Publish an error message with its resolution options
static void	NotificationManager.publishResolvableWarning(Object topic, String message, Graph graph, Object[] data, NotificationResolution resolution) Publish a warning message with its resolution options

Uses of Graph in org.ginsim.core.notification.resolvable

Methods in org.ginsim.core.notification.resolvable with parameters of type Graph

Modifier and Type	Method and Description
boolean	InvalidFunctionResolution.perform(Graph graph, Object[] data, int index)
boolean	NotificationResolution.perform(Graph graph, Object[] data, int index)

Constructors in org.ginsim.core.notification.resolvable with parameters of type Graph

Constructor and Description
ResolvableErrorNotification(Object topic, String message, Graph graph, Object[] data, NotificationResolution resolution)
ResolvableWarningNotification(Object topic, String message, Graph graph, Object[] data, NotificationResolution resolution)

Uses of Graph in org.ginsim.gui

Methods in org.ginsim.gui with parameters of type Graph

Modifier and Type	Method and Description
void	GUIManager.addBlockClose(Graph graph, Object key) Block closing of the graph
void	GUIManager.addBlockEdit(Graph graph, Object key) block editing mode for the graph
boolean	GUIManager.canClose(Graph graph) Verify if it is allowed to close the graph can be closed
boolean	GUIManager.close(Graph graph) Unmemorize the relationship between a graph and its GraphGUI and Frame
Frame	GUIManager.getFrame(Graph graph) Give access to the Frame corresponding to the given Graph
GraphGUI	GUIManager.getGraphGUI(Graph graph) Give access to the GraphGUI corresponding to the given Graph
boolean	GUIManager.isEditAllowed(Graph graph) Verify if edition is allowed on the graph
static void	WhatToDoWithGraph.layoutIfNeeded(Graph<?,?> graph)
Frame	GUIManager.newFrame(Graph graph) Build a new frame for the given Graph by creating a suitable GraphGUI and memorize their relationship
Frame	GUIManager.newFrame(Graph graph, boolean can_be_saved) Build a new frame for the given Graph by creating a suitable GraphGUI and memorize their relationship
void	GUIManager.removeBlockClose(Graph graph, Object key) Remove a block on closing
void	GUIManager.removeBlockEdit(Graph graph, Object key) Remove a block on Edition
void	GUIManager.whatToDoWithGraph(Graph<?,?> new_graph)
void	GUIManager.whatToDoWithGraph(Graph<?,?> new_graph, Graph<?,?> parent_graph) Manage the action to execute on the new graph (that was generated from the parent graph).
void	GUIManager.whatToDoWithGraph(Graph<?,?> new_graph, Graph<?,?> parent_graph) Manage the action to execute on the new graph (that was generated from the parent graph).

Constructors in org.ginsim.gui with parameters of type Graph

Constructor and Description
WhatToDoWithGraph(Graph graph) Create the frame.

Uses of Graph in org.ginsim.gui.graph

Classes in org.ginsim.gui.graph with type parameters of type Graph

Modifier and Type	Class and Description
class	BaseGraphGUI<G extends Graph<V,E>,V,E extends Edge<V>> Abstract class providing generic parts of a Graph GUI.
interface	GraphGUI<G extends Graph<V,E>,V,E extends Edge<V>> Deal with the GUI view of a graph: get a component, provide access to selected items and view options.
interface	GraphGUIHelper<G extends Graph<V,E>,V,E extends Edge<V>> GUI-side helper for a graph type.
interface	GraphGUIListener<G extends Graph<V,E>,V,E extends Edge<V>> Interface for objects which listen for Graph GUI events.

Fields in org.ginsim.gui.graph declared as Graph

Modifier and Type	Field and Description
protected G	BaseGraphGUI.graph

Methods in org.ginsim.gui.graph that return Graph

Modifier and Type	Method and Description
Graph<V,E>	GraphGUI.getGraph()
Graph<V,E>	BaseGraphGUI.getGraph()

Methods in org.ginsim.gui.graph with parameters of type Graph

Modifier and Type	Method and Description
GraphGUIHelper<?,?,?>	GraphGUIHelperFactory.getGraphGUIHelper(Graph graph) Give access to the GraphGUIHelper corresponding to the given graph

Constructors in org.ginsim.gui.graph with parameters of type Graph

Constructor and Description
DeleteAction(Graph<?,?> graph)

Uses of Graph in org.ginsim.gui.graph.canvas

Classes in org.ginsim.gui.graph.canvas with type parameters of type Graph

Modifier and Type	Class and Description
class	CanvasGraphGUIImpl<G extends Graph<V,E>,V,E extends Edge<V>>

Fields in org.ginsim.gui.graph.canvas declared as Graph

Modifier and Type	Field and Description
Graph	GraphCanvasRenderer.graph

Constructors in org.ginsim.gui.graph.canvas with parameters of type Graph

Constructor and Description
GraphCanvasRenderer(Graph<?,?> graph, SimpleCanvas canvas, GraphSelection selection, EditActionManager amanager)

Uses of Graph in org.ginsim.gui.graph.canvas.events

Constructors in org.ginsim.gui.graph.canvas.events with parameters of type Graph

Constructor and Description
GraphSelectionCanvasEventManager(Graph<?,?> graph, GraphCanvasRenderer renderer, GraphSelection selection)

Uses of Graph in org.ginsim.gui.graph.regulatorygraph.initialstate

Constructors in org.ginsim.gui.graph.regulatorygraph.initialstate with parameters of type Graph

Constructor and Description
InitialStatePanel(Graph graph, boolean several)
InitialStatePanel(Graph graph, boolean several, String titleInternal, String titleInput)

Uses of Graph in org.ginsim.gui.graph.view.style

Constructors in org.ginsim.gui.graph.view.style with parameters of type Graph

Constructor and Description
ColorizerPanel(Graph<?,?> graph) Create a ColorizerPanel containing the colorizeButton but no initialColorizationCheckbox.
ColorizerPanel(String storeUserChoicePrefix, Graph<?,?> graph) Create a ColorizerPanel containing the colorizeButton.
StyleColorizerCheckbox(String storeUserChoicePrefix, Graph<?,?> graph, StyleProvider styleProvider) Create a ColorizerPanel containing the colorizeButton.

Uses of Graph in org.ginsim.gui.service

Methods in org.ginsim.gui.service with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	SimpleServiceGUI.getAvailableActions(Graph<?,?> graph)
List<Action>	FormatSupportServiceGUI.getAvailableActions(Graph<?,?> graph)
List<Action>	ServiceGUI.getAvailableActions(Graph<?,?> graph) Give access to the list of the actions that the service provides for the given graph.
static List<Action>	GSServiceGUIManager.getAvailableActions(Graph<?,?> graph) Give access to the list of GUI actions provided by the available services for the given graph type

Uses of Graph in org.ginsim.gui.shell

Methods in org.ginsim.gui.shell with parameters of type Graph

Modifier and Type	Method and Description
void	MainFrame.graphChanged(Graph g, GraphChangeType type, Object data)

Uses of Graph in org.ginsim.gui.shell.actions

Classes in org.ginsim.gui.shell.actions with type parameters of type Graph

Modifier and Type	Class and Description
class	ExportAction<G extends Graph>
class	LayoutAction<G extends Graph<?,?>>

Fields in org.ginsim.gui.shell.actions declared as Graph

Modifier and Type	Field and Description
protected G	ExportAction.graph
protected Graph<?,?>	GenericGraphAction.graph
G	LayoutAction.graph

Constructors in org.ginsim.gui.shell.actions with parameters of type Graph

Constructor and Description
GenericGraphAction(Graph<?,?> graph, String name, ImageIcon icon, String tooltip, KeyStroke accelerator, ServiceGUI serviceGUI)
GenericGraphAction(Graph<?,?> graph, String name, ServiceGUI serviceGUI)
GenericGraphAction(Graph<?,?> graph, String name, String tooltip, ServiceGUI serviceGUI)

Uses of Graph in org.ginsim.gui.shell.callbacks

Fields in org.ginsim.gui.shell.callbacks declared as Graph

Modifier and Type	Field and Description
protected static Graph	EditCallBack.copiedSubGraph

Methods in org.ginsim.gui.shell.callbacks with parameters of type Graph

Modifier and Type	Method and Description
static void	SelectionCallBack.fillMenu(JMenu menu, Graph graph)
static JMenu	FileCallBack.getFileMenu(Graph<?,?> g, JMenu importMenu, JMenu exportMenu) Create and populate a File menu.

Uses of Graph in org.ginsim.gui.shell.editpanel

Classes in org.ginsim.gui.shell.editpanel with type parameters of type Graph

Modifier and Type	Class and Description
class	AbstractParameterPanel<G extends Graph,T> All parameter panels must extend this abstract class to be updated on selection changes

Fields in org.ginsim.gui.shell.editpanel declared as Graph

Modifier and Type	Field and Description
protected G	AbstractParameterPanel.graph

Methods in org.ginsim.gui.shell.editpanel with parameters of type Graph

Modifier and Type	Method and Description
void	EditPanel.graphChanged(Graph g, GraphChangeType type, Object data)

Constructors in org.ginsim.gui.shell.editpanel with parameters of type Graph

Constructor and Description
AbstractParameterPanel(Graph<?,?> graph)

Uses of Graph in org.ginsim.gui.utils.dialog.stackdialog

Constructors in org.ginsim.gui.utils.dialog.stackdialog with parameters of type Graph

Constructor and Description
StackDialog(Graph<?,?> graph, String id, int w, int h)

Uses of Graph in org.ginsim.gui.utils.widgets

Methods in org.ginsim.gui.utils.widgets with parameters of type Graph

Modifier and Type	Method and Description
void	Frame.setFrameTitle(Graph graph, boolean saved) Set the title of the frame

Uses of Graph in org.ginsim.service.export.image

Methods in org.ginsim.service.export.image with parameters of type Graph

Modifier and Type	Method and Description
void	ImageExportService.exportPNG(Graph<?,Edge<?>> graph, String fileName) Export a model view as PNG image.
void	ImageExportService.exportPNG(Graph<?,Edge<?>> graph, String fileName, int f) Export a model view as PNG image.
void	ImageExportService.exportSVG(Graph graph, Collection nodes, Collection<Edge> edges, String fileName) Export the graph to a SVG file
void	ImageExportService.exportSVG(Graph graph, String fileName) Export the graph to a SVG file
void	ImageExportService.exportSVG(Graph graph, StyleProvider styler, String fileName) Export the graph to a SVG file
BufferedImage	ImageExportService.getPNG(Graph<?,?> graph, int f)
String	ImageExportService.getSVG(Graph graph) Get a SVG representation of the graph
String	ImageExportService.getSVG(Graph graph, StyleProvider styler) Get a SVG representation of the graph with a custom style
<N,E extends Edge<N>> byte[]	ImageExportService.rawPNG(Graph<N,E> graph)
byte[]	ImageExportService.rawPNG(Graph lrg, StyleProvider styleProvider)

Constructors in org.ginsim.service.export.image with parameters of type Graph

Constructor and Description
SVGEncoder(Graph graph, Collection nodes, Collection<Edge> edges, String fileName)

Uses of Graph in org.ginsim.service.export.struct

Methods in org.ginsim.service.export.struct with parameters of type Graph

Modifier and Type	Method and Description
void	GraphStructureExportService.biolayoutExport(Graph graph, Collection<Edge<?>> edges, String filename) Encode the graph to struct output
void	BiolayoutEncoder.encode(Graph graph, Collection<Edge<?>> edges, String filename) Encode the graph to struct output
void	GraphvizEncoder.encode(Graph graph, Collection<Object> nodes, Collection<Edge<?>> edges, String filename) Encode the graph to graphviz output
void	GraphStructureExportService.graphvizExport(Graph graph, Collection<Object> nodes, Collection<Edge<?>> edges, String filename)

Uses of Graph in org.ginsim.service.layout

Methods in org.ginsim.service.layout with parameters of type Graph

Modifier and Type	Method and Description
static void	LayoutService.runLayout(int ref, Graph graph)

Uses of Graph in org.ginsim.service.tool.avatar.params

Methods in org.ginsim.service.tool.avatar.params with parameters of type Graph

Modifier and Type	Method and Description
AvatarParameterList	AvatarParametersManager.doCreate(Graph graph)
AvatarParameterList	AvatarParametersManager.doOpen(InputStream is, Graph graph)
void	AvatarParametersManager.doSave(OutputStreamWriter os, Graph graph)

Constructors in org.ginsim.service.tool.avatar.params with parameters of type Graph

Constructor and Description
AvatarParameterList(Graph<RegulatoryNode,RegulatoryMultiEdge> graph, AvatarParameters param)

Uses of Graph in org.ginsim.service.tool.composition

Methods in org.ginsim.service.tool.composition with parameters of type Graph

Modifier and Type	Method and Description
void	ReductionStub.endSimu(Graph graph, Exception e)

Uses of Graph in org.ginsim.service.tool.graphcomparator

Classes in org.ginsim.service.tool.graphcomparator with type parameters of type Graph

Modifier and Type	Class and Description
class	GraphComparator<V,E extends Edge<V>,G extends Graph<V,E>> Compare two Graphs.
class	GraphComparatorResult<V,E extends Edge<V>,G extends Graph<V,E>> Contains the result of the comparison of two graphs graph_1 and graph_2 and the proper methods to handle the display of theses results

Fields in org.ginsim.service.tool.graphcomparator declared as Graph

Modifier and Type	Field and Description
G	GraphComparator.graph_1
G	GraphComparator.graph_2
G	GraphComparator.graph_new

Methods in org.ginsim.service.tool.graphcomparator that return Graph

Modifier and Type	Method and Description
Graph	GraphComparatorResult.getDiffGraph() Return the new graph created for the comparison

Methods in org.ginsim.service.tool.graphcomparator with parameters of type Graph

Modifier and Type	Method and Description
GraphComparatorResult	GraphComparatorService.run(Graph graph_frame, Graph graph_1, Graph graph_2) Compare graph_1 and graph_2 and return a GraphComparatorResult object.
GraphComparatorResult	GraphComparatorService.run(Graph graph_frame, Graph graph_1, Graph graph_2) Compare graph_1 and graph_2 and return a GraphComparatorResult object.
GraphComparatorResult	GraphComparatorService.run(Graph graph_frame, Graph graph_1, Graph graph_2) Compare graph_1 and graph_2 and return a GraphComparatorResult object.

Uses of Graph in org.ginsim.service.tool.modelreduction

Methods in org.ginsim.service.tool.modelreduction with parameters of type Graph

Modifier and Type	Method and Description
ListOfReductionConfigs	ReductionConfigManager.doCreate(Graph graph)
ListOfReductionConfigs	ReductionConfigManager.doOpen(InputStream is, Graph graph)
void	ReductionConfigManager.doSave(OutputStreamWriter os, Graph graph)

Uses of Graph in org.ginsim.service.tool.reg2dyn

Fields in org.ginsim.service.tool.reg2dyn with type parameters of type Graph

Modifier and Type	Field and Description
protected ProgressListener<Graph>	Simulation.frame

Methods in org.ginsim.service.tool.reg2dyn that return Graph

Modifier and Type	Method and Description
Graph	Simulation.do_simulation()

Methods in org.ginsim.service.tool.reg2dyn with parameters of type Graph

Modifier and Type	Method and Description
SimulationParameterList	SimulationParametersManager.doCreate(Graph graph)
SimulationParameterList	SimulationParametersManager.doOpen(InputStream is, Graph graph)
void	SimulationParametersManager.doSave(OutputStreamWriter os, Graph graph)

Method parameters in org.ginsim.service.tool.reg2dyn with type arguments of type Graph

Modifier and Type	Method and Description
Simulation	Reg2DynService.get(org.colomoto.biolqm.LogicalModel model, ProgressListener<Graph> plist, SimulationParameters currentParameter)

Constructors in org.ginsim.service.tool.reg2dyn with parameters of type Graph

Constructor and Description
SimulationParameterList(Graph graph)
SimulationParameterList(Graph<RegulatoryNode,RegulatoryMultiEdge> graph, SimulationParameters param)

Constructor parameters in org.ginsim.service.tool.reg2dyn with type arguments of type Graph

Constructor and Description
Simulation(org.colomoto.biolqm.LogicalModel model, ProgressListener<Graph> frame, SimulationParameters params) Constructs an empty dynamic graph

Uses of Graph in org.ginsim.service.tool.reg2dyn.helpers

Methods in org.ginsim.service.tool.reg2dyn.helpers that return Graph

Modifier and Type	Method and Description
Graph	SimulationHelper.endSimulation()
Graph	STGSimulationHelper.endSimulation()
Graph	HTGSimulationHelper.endSimulation()
Graph	SimulationHelper.getDynamicGraph()
Graph	STGSimulationHelper.getDynamicGraph()
Graph	HTGSimulationHelper.getDynamicGraph()

Uses of Graph in org.ginsim.service.tool.reg2dyn.htg

Methods in org.ginsim.service.tool.reg2dyn.htg that return Graph

Modifier and Type	Method and Description
Graph	HTGSimulation.do_simulation() Run the simulation, handle exception and build the graph.

Constructor parameters in org.ginsim.service.tool.reg2dyn.htg with type arguments of type Graph

Constructor and Description
HTGSimulation(org.colomoto.biolqm.LogicalModel model, ProgressListener<Graph> plist, SimulationParameters params)
TarjanSimulation(HTGSimulation htgSimulation, ProgressListener<Graph> frame)

Uses of Graph in org.ginsim.service.tool.reg2dyn.limitedsimulation

Methods in org.ginsim.service.tool.reg2dyn.limitedsimulation that return Graph

Modifier and Type	Method and Description
Graph	LimitedSimulation.do_simulation()

Methods in org.ginsim.service.tool.reg2dyn.limitedsimulation with parameters of type Graph

Modifier and Type	Method and Description
Object	StatesToHierarchicalMappingManager.doCreate(Graph graph)
Object	StatesToHierarchicalMappingManager.doOpen(InputStream is, Graph graph)
void	StatesToHierarchicalMappingManager.doSave(OutputStreamWriter out, Graph graph)
boolean	StatesToHierarchicalMappingManager.needSaving(Graph graph)

Constructor parameters in org.ginsim.service.tool.reg2dyn.limitedsimulation with type arguments of type Graph

Constructor and Description
LimitedSimulation(org.colomoto.biolqm.LogicalModel model, HierarchicalTransitionGraph htg, SimulationConstraint constraint, SimulationParameters params, ProgressListener<Graph> simulationManager) Constructs an empty dynamic graph

Uses of Graph in org.ginsim.service.tool.scc

Methods in org.ginsim.service.tool.scc with parameters of type Graph

Modifier and Type	Method and Description
org.colomoto.common.task.Task<ReducedGraph>	SCCGraphService.backgroundSCCGraph(Graph graph, org.colomoto.common.task.TaskListener listener) Compute the SCC graph in background.
List<NodeReducedData>	SCCGraphService.getComponents(Graph graph)
ReducedGraph	SCCGraphService.getSCCGraph(Graph graph) Compute the SCC of graph.
StyleProvider	SCCGraphService.getStyleProvider(List<NodeReducedData> sccs, Graph graph)

Constructors in org.ginsim.service.tool.scc with parameters of type Graph

Constructor and Description
ConnectivityStyleProvider(List<NodeReducedData> components, Graph graph)
SCCGraphAlgo(Graph graph) get ready to run.
StronglyConnectedComponentTask(Graph graph) get ready to run.

Uses of Graph in org.ginsim.servicegui.export.cadp

Methods in org.ginsim.servicegui.export.cadp with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	CADPExportServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.export.documentation

Methods in org.ginsim.servicegui.export.documentation with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	LRGDocumentationServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.export.image

Methods in org.ginsim.servicegui.export.image with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	ImageExportServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.export.maboss

Methods in org.ginsim.servicegui.export.maboss with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	MaBoSSExportServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.export.nusmv

Methods in org.ginsim.servicegui.export.nusmv with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	NuSMVExportServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.export.petrinet

Methods in org.ginsim.servicegui.export.petrinet with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	PetriNetExportServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.export.prism

Methods in org.ginsim.servicegui.export.prism with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	PRISMExportServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.export.reggraph

Methods in org.ginsim.servicegui.export.reggraph with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	RegGraphExportServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.export.sat

Methods in org.ginsim.servicegui.export.sat with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	SATExportServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.export.struct

Methods in org.ginsim.servicegui.export.struct with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	GraphStructureExportServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.format.ginml

Methods in org.ginsim.servicegui.format.ginml with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	GINMLFormatServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.layout

Methods in org.ginsim.servicegui.layout with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	LayoutServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.avatar

Methods in org.ginsim.servicegui.tool.avatar with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	AvatarServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.circuit

Methods in org.ginsim.servicegui.tool.circuit with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	CircuitServiceGUI.getAvailableActions(Graph<?,?> graph)

Constructors in org.ginsim.servicegui.tool.circuit with parameters of type Graph

Constructor and Description
CircuitFrame(JFrame frame, Graph<?,?> graph) This is the default constructor

Uses of Graph in org.ginsim.servicegui.tool.composition

Methods in org.ginsim.servicegui.tool.composition with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	CompositionServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.dataviewer

Methods in org.ginsim.servicegui.tool.dataviewer with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	DataViewerServiceGUI.getAvailableActions(Graph<?,?> graph)

Constructors in org.ginsim.servicegui.tool.dataviewer with parameters of type Graph

Constructor and Description
DataViewer(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.decisionanalysis

Methods in org.ginsim.servicegui.tool.decisionanalysis with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	DecisionAnalysisServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.dynamicanalyser

Methods in org.ginsim.servicegui.tool.dynamicanalyser with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	DynamicAnalyserServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.graphcomparator

Methods in org.ginsim.servicegui.tool.graphcomparator with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	GraphComparatorServiceGUI.getAvailableActions(Graph<?,?> graph)

Constructors in org.ginsim.servicegui.tool.graphcomparator with parameters of type Graph

Constructor and Description
GraphComparatorFrame(JFrame frame, Graph graph)

Uses of Graph in org.ginsim.servicegui.tool.interactionanalysis

Methods in org.ginsim.servicegui.tool.interactionanalysis with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	InteractionAnalysisServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.localgraph

Methods in org.ginsim.servicegui.tool.localgraph with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	LocalGraphServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.modelbooleanizer

Methods in org.ginsim.servicegui.tool.modelbooleanizer with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	ModelBooleanizerServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.modelreduction

Methods in org.ginsim.servicegui.tool.modelreduction with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	ReductionServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.modelreversion

Methods in org.ginsim.servicegui.tool.modelreversion with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	ModelReversionServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.omddViz

Methods in org.ginsim.servicegui.tool.omddViz with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	OmddVizServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.pathfinding

Methods in org.ginsim.servicegui.tool.pathfinding that return Graph

Modifier and Type	Method and Description
Graph	PathFindingFrame.getGraph()

Methods in org.ginsim.servicegui.tool.pathfinding with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	PathFindingServiceGUI.getAvailableActions(Graph<?,?> graph)

Constructors in org.ginsim.servicegui.tool.pathfinding with parameters of type Graph

Constructor and Description
PathFinding(ResultHandler resultHandler, Graph graph, List<Object> search) Create a new thread that will search a path between start and end The graphManager is used to find the outgoingEdges from a node.
PathFindingFrame(Graph graph)

Uses of Graph in org.ginsim.servicegui.tool.polytopesViz

Methods in org.ginsim.servicegui.tool.polytopesViz with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	PolytopesVizServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.reg2dyn

Methods in org.ginsim.servicegui.tool.reg2dyn with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	Reg2DynServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.reg2dyn.limitedSimulation

Methods in org.ginsim.servicegui.tool.reg2dyn.limitedSimulation with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	LimitedSimulationServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.regulatorygraphanimation

Methods in org.ginsim.servicegui.tool.regulatorygraphanimation with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	RegulatoryGraphAnimationServiceGUI.getAvailableActions(Graph<?,?> graph)
void	RegulatoryAnimator.graphChanged(Graph g, GraphChangeType type, Object data)
void	RegulatoryAnimator.updateGraphNotificationMessage(Graph graph)

Uses of Graph in org.ginsim.servicegui.tool.regulatorytreefunction

Methods in org.ginsim.servicegui.tool.regulatorytreefunction with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	RegulatoryFunctionTreeServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.scc

Methods in org.ginsim.servicegui.tool.scc with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	ConnectivityServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.stableregions

Methods in org.ginsim.servicegui.tool.stableregions with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	StableRegionsServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.stablestates

Methods in org.ginsim.servicegui.tool.stablestates with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	StableStatesServiceGUI.getAvailableActions(Graph<?,?> graph)

Uses of Graph in org.ginsim.servicegui.tool.stateinregulatorygraph

Methods in org.ginsim.servicegui.tool.stateinregulatorygraph with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	StateInRegulatoryGraphServiceGUI.getAvailableActions(Graph<?,?> graph)

Constructors in org.ginsim.servicegui.tool.stateinregulatorygraph with parameters of type Graph

Constructor and Description
StateInRegGraphFrame(JFrame frame, Graph graph)

Uses of Graph in org.ginsim.servicegui.tool.trapspace

Methods in org.ginsim.servicegui.tool.trapspace with parameters of type Graph

Modifier and Type	Method and Description
List<Action>	TrapSpaceServiceGUI.getAvailableActions(Graph<?,?> graph)