cyTransFinder

Class WebserviceTask_TFTargetmine

java.lang.Object

org.cytoscape.work.AbstractTask

cyTransFinder.WebserviceTask_TFTargetmine

All Implemented Interfaces:

org.cytoscape.work.Task

public class WebserviceTask_TFTargetmine
extends org.cytoscape.work.AbstractTask

Field Summary

Fields

Modifier and Type	Field and Description
protected List<Map<String,String>>	AllDownStreamList
protected Map<String,String>	AllTFHash
protected List<Map<String,String>>	AllTFList
protected List<Map<String,String>>	AllTFTargetList
protected List<Map<String,String>>	AllUpstreamList
protected Document	document
protected String	geneID
protected MyCytoPanel	myCytoPanel
protected String	myFunction
protected Integer	myIter
protected List<Map<String,String>>	TFTargetList

Fields inherited from class org.cytoscape.work.AbstractTask

cancelled

Constructor Summary

Constructors

Constructor and Description
WebserviceTask_TFTargetmine(String ORGANISM, Set<org.cytoscape.model.CyNode> GENE_NODES, CyActivator CY_ACTIVATOR, org.cytoscape.view.model.CyNetworkView MYVIEW, MyCytoPanel myCytoPanel, String FUNCTION, int Iter)

Method Summary

Modifier and Type	Method and Description
Map<String,String>	getAllTF()
protected void	listAllTF()
protected void	listAndAddTFTargets(String GENEID, org.cytoscape.model.CyNode geneNode)
protected void	listDownstreamTF(String GENEID)
protected void	listTFTargets(String GENEID)
protected void	listUpstreamTF(String GENEID)
void	run(org.cytoscape.work.TaskMonitor taskMonitor)

Methods inherited from class org.cytoscape.work.AbstractTask

cancel, insertTasksAfterCurrentTask, insertTasksAfterCurrentTask, setTaskIterator

Methods inherited from class java.lang.Object

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

Field Detail

TFTargetList

protected List<Map<String,String>> TFTargetList

AllTFList

protected List<Map<String,String>> AllTFList

AllUpstreamList

protected List<Map<String,String>> AllUpstreamList

AllDownStreamList

protected List<Map<String,String>> AllDownStreamList

AllTFTargetList

protected List<Map<String,String>> AllTFTargetList

AllTFHash

protected Map<String,String> AllTFHash

document

protected Document document

geneID

protected String geneID

myCytoPanel

protected MyCytoPanel myCytoPanel

myFunction

protected String myFunction

myIter

protected Integer myIter

Constructor Detail

WebserviceTask_TFTargetmine

public WebserviceTask_TFTargetmine(String ORGANISM,
                                   Set<org.cytoscape.model.CyNode> GENE_NODES,
                                   CyActivator CY_ACTIVATOR,
                                   org.cytoscape.view.model.CyNetworkView MYVIEW,
                                   MyCytoPanel myCytoPanel,
                                   String FUNCTION,
                                   int Iter)

Method Detail

listTFTargets

protected void listTFTargets(String GENEID)

listAndAddTFTargets

protected void listAndAddTFTargets(String GENEID,
                                   org.cytoscape.model.CyNode geneNode)

listDownstreamTF

protected void listDownstreamTF(String GENEID)

listUpstreamTF

protected void listUpstreamTF(String GENEID)

listAllTF

protected void listAllTF()

getAllTF

public Map<String,String> getAllTF()

run

public void run(org.cytoscape.work.TaskMonitor taskMonitor)
         throws Exception

Specified by:

run in interface org.cytoscape.work.Task

Specified by:

run in class org.cytoscape.work.AbstractTask

Throws:

Exception