Uses of Class
de.bioforscher.singa.simulation.model.graphs.AutomatonGraph

Packages that use AutomatonGraph

Package	Description
de.bioforscher.singa.simulation.events
de.bioforscher.singa.simulation.model.compartments
de.bioforscher.singa.simulation.model.graphs
de.bioforscher.singa.simulation.modules.model
de.bioforscher.singa.simulation.parser.graphs

Uses of AutomatonGraph in de.bioforscher.singa.simulation.events

Methods in de.bioforscher.singa.simulation.events that return AutomatonGraph

Modifier and Type	Method and Description
AutomatonGraph	GraphUpdatedEvent.getGraph()

Constructors in de.bioforscher.singa.simulation.events with parameters of type AutomatonGraph

Constructor and Description
GraphUpdatedEvent(AutomatonGraph graph)

Uses of AutomatonGraph in de.bioforscher.singa.simulation.model.compartments

Methods in de.bioforscher.singa.simulation.model.compartments with parameters of type AutomatonGraph

Modifier and Type	Method and Description
void	Membrane.initializeNodes(AutomatonGraph automatonGraph)

Uses of AutomatonGraph in de.bioforscher.singa.simulation.model.graphs

Methods in de.bioforscher.singa.simulation.model.graphs that return AutomatonGraph

Modifier and Type	Method and Description
static AutomatonGraph	AutomatonGraphs.createRectangularAutomatonGraph(int numberOfColumns, int numberOfRows)
static AutomatonGraph	AutomatonGraphs.useStructureFrom(UndirectedGraph undirectedGraph) Copies the structure (nodes and edges) of an UndirectedGraph to a AutomatonGraph.

Methods in de.bioforscher.singa.simulation.model.graphs with parameters of type AutomatonGraph

Modifier and Type	Method and Description
static Map<String,ChemicalEntity<?>>	AutomatonGraphs.generateMapOfEntities(AutomatonGraph graph) Creates and returns a map that contains all chemical entities that are present in the given graph as values and with the name of the entity as key.
static Membrane	AutomatonGraphs.splitRectangularGraphWithMembrane(AutomatonGraph graph, GridCoordinateConverter converter, EnclosedCompartment innerSection, CellSection outerSection)

Uses of AutomatonGraph in de.bioforscher.singa.simulation.modules.model

Methods in de.bioforscher.singa.simulation.modules.model that return AutomatonGraph

Modifier and Type	Method and Description
AutomatonGraph	Simulation.getGraph() Returns the simulation graph.

Methods in de.bioforscher.singa.simulation.modules.model with parameters of type AutomatonGraph

Modifier and Type	Method and Description
void	Simulation.setGraph(AutomatonGraph graph) Sets the simulation graph and adds all entities referenced in the graph to the chemical entities of the simulation.

Uses of AutomatonGraph in de.bioforscher.singa.simulation.parser.graphs

Methods in de.bioforscher.singa.simulation.parser.graphs that return AutomatonGraph

Modifier and Type	Method and Description
AutomatonGraph	GraphMLContentHandler.getGraph()
AutomatonGraph	GraphMLParserService.parse()

Methods in de.bioforscher.singa.simulation.parser.graphs with parameters of type AutomatonGraph

Modifier and Type	Method and Description
static void	GraphMLExportService.exportGraph(AutomatonGraph graph, File file) Exports a Graph to a GraphML file.