fr.curie.BiNoM.cytoscape.biopax
Class BioPAXImport

java.lang.Object
  fr.curie.BiNoM.cytoscape.biopax.BioPAXImport

All Implemented Interfaces:

cytoscape.task.Haltable, cytoscape.task.Task, java.lang.Runnable

public class BioPAXImport
extends java.lang.Object
implements cytoscape.task.Task

Constructor Summary

BioPAXImport(java.io.File file, java.net.URL url, java.lang.String name, int[] algos, BioPAXToCytoscapeConverter.Option option)

Method Summary

static BioPAX	getBioPAX(cytoscape.CyNetwork cyNetwork)
cytoscape.CyNetwork	getCyNetwork()
java.lang.String	getTitle()
void	halt()
static boolean	isBioPAXNetwork(cytoscape.CyNetwork cyNetwork)
void	run()
void	setTaskMonitor(cytoscape.task.TaskMonitor taskMonitor)

Methods inherited from class java.lang.Object

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

Constructor Detail

BioPAXImport

public BioPAXImport(java.io.File file,
                    java.net.URL url,
                    java.lang.String name,
                    int[] algos,
                    BioPAXToCytoscapeConverter.Option option)

Method Detail

halt

public void halt()

Specified by:

halt in interface cytoscape.task.Haltable

Specified by:

halt in interface cytoscape.task.Task

setTaskMonitor

public void setTaskMonitor(cytoscape.task.TaskMonitor taskMonitor)
                    throws java.lang.IllegalThreadStateException

Specified by:

setTaskMonitor in interface cytoscape.task.Task

Throws:

java.lang.IllegalThreadStateException

getTitle

public java.lang.String getTitle()

Specified by:

getTitle in interface cytoscape.task.Task

getCyNetwork

public cytoscape.CyNetwork getCyNetwork()

run

public void run()

Specified by:

run in interface cytoscape.task.Task

Specified by:

run in interface java.lang.Runnable

isBioPAXNetwork

public static boolean isBioPAXNetwork(cytoscape.CyNetwork cyNetwork)

getBioPAX

public static BioPAX getBioPAX(cytoscape.CyNetwork cyNetwork)