de.bioforscher.singa.simulation.model.graphs

Class AutomatonGraphs

java.lang.Object

de.bioforscher.singa.simulation.model.graphs.AutomatonGraphs

public class AutomatonGraphs
extends Object

Author:

cl

Method Summary

Modifier and Type	Method and Description
static AutomatonGraph	createRectangularAutomatonGraph(int numberOfColumns, int numberOfRows)
static Map<String,ChemicalEntity<?>>	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	splitRectangularGraphWithMembrane(AutomatonGraph graph, GridCoordinateConverter converter, EnclosedCompartment innerSection, CellSection outerSection)
static AutomatonGraph	useStructureFrom(UndirectedGraph undirectedGraph) Copies the structure (nodes and edges) of an UndirectedGraph to a AutomatonGraph.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Method Detail

generateMapOfEntities

public static Map<String,ChemicalEntity<?>> 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.

Parameters:

graph - A graph with species

Returns:

All chemical entities in the graph.

createRectangularAutomatonGraph

public static AutomatonGraph createRectangularAutomatonGraph(int numberOfColumns,
                                                             int numberOfRows)

useStructureFrom

public static AutomatonGraph useStructureFrom(UndirectedGraph undirectedGraph)

Copies the structure (nodes and edges) of an UndirectedGraph to a AutomatonGraph. No new data is generated. Indices are persistent. Both Graphs are independently modifiable.

Parameters:

undirectedGraph - The graph to be cast

Returns:

The generated automaton graph.

splitRectangularGraphWithMembrane

public static Membrane splitRectangularGraphWithMembrane(AutomatonGraph graph,
                                                         GridCoordinateConverter converter,
                                                         EnclosedCompartment innerSection,
                                                         CellSection outerSection)