org.ginsim.service.export.struct

Class GraphStructureExportService

java.lang.Object

org.ginsim.service.export.struct.GraphStructureExportService

All Implemented Interfaces:

Service

@MetaInfServices(value=Service.class)
 @Alias(value="structure-export")
 @ServiceStatus(value=RELEASED)
public class GraphStructureExportService
extends Object
implements Service

Export the structure of a graph to various formats: GraphViz, Biolayout, and cytoscape.

Author:

Aurelien Naldi

Constructor Summary

Constructors

Constructor and Description
GraphStructureExportService()

Method Summary

Modifier and Type	Method and Description
void	biolayoutExport(Graph graph, Collection<Edge<?>> edges, String filename) Encode the graph to struct output
void	cytoscapeExport(RegulatoryGraph graph, String filename) Run the Cytoscape export by instantiating and calling a CytoscapeEncoder
void	graphvizExport(Graph graph, Collection<Object> nodes, Collection<Edge<?>> edges, String filename)

Methods inherited from class java.lang.Object

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

Constructor Detail

GraphStructureExportService

public GraphStructureExportService()

Method Detail

biolayoutExport

public void biolayoutExport(Graph graph,
                            Collection<Edge<?>> edges,
                            String filename)
                     throws IOException

Encode the graph to struct output

Parameters:

graph - the graph to encode

edges - the list of edges that must be part of the output

filename - the path to the output file

Throws:

IOException

graphvizExport

public void graphvizExport(Graph graph,
                           Collection<Object> nodes,
                           Collection<Edge<?>> edges,
                           String filename)
                    throws IOException

Throws:

IOException

cytoscapeExport

public void cytoscapeExport(RegulatoryGraph graph,
                            String filename)
                     throws GsException,
                            IOException

Run the Cytoscape export by instantiating and calling a CytoscapeEncoder

Parameters:

graph - the graph to export

filename - the path to the output xgmml file

Throws:

GsException

IOException