idare.subnetwork.internal.Tasks.SubsystemGeneration

Class SubnetworkCreationTask

java.lang.Object

org.cytoscape.work.AbstractTask

idare.subnetwork.internal.Tasks.SubsystemGeneration.SubnetworkCreationTask

All Implemented Interfaces:

org.cytoscape.work.swing.RequestsUIHelper, org.cytoscape.work.Task

public class SubnetworkCreationTask
extends org.cytoscape.work.AbstractTask
implements org.cytoscape.work.swing.RequestsUIHelper

A Task creating Subnetworks for a Network.

Author:

Thomas Pfau

Field Summary

Fields

Modifier and Type	Field and Description
boolean	keepoldLinks
SubNetworkProperties	params
static String	subnetworkNameSeparator

Fields inherited from class org.cytoscape.work.AbstractTask

cancelled

Constructor Summary

Constructors

Constructor and Description
SubnetworkCreationTask(org.cytoscape.service.util.CyServiceRegistrar reg, NetworkViewSwitcher nvs, IDARESettingsManager ism) Default constructor

Method Summary

Modifier and Type	Method and Description
static boolean	isempty(org.cytoscape.model.CyRow row, String ColName) Check whether the entry of Column ColName in CyRow row is empty.
static boolean	isempty(Object Entry) Check whether a given Object is either empty or an empty String
void	run(org.cytoscape.work.TaskMonitor arg0)
void	setLinkNodeVisualProperties(Collection<DelayedVizProp> props, org.cytoscape.model.CyNode node)
void	setUIHelper(org.cytoscape.work.swing.TunableUIHelper arg0)

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

subnetworkNameSeparator

public static final String subnetworkNameSeparator

See Also:

Constant Field Values

params

public SubNetworkProperties params

keepoldLinks

public boolean keepoldLinks

Constructor Detail

SubnetworkCreationTask

public SubnetworkCreationTask(org.cytoscape.service.util.CyServiceRegistrar reg,
                              NetworkViewSwitcher nvs,
                              IDARESettingsManager ism)

Default constructor

Parameters:

reg - a CyServiceRegistrar to obtain necessary services from

nvs - The NetworkViewSwitcher to add the linker information to

ism - the Settings Manager to obtain and NodeIDs and property data..

Method Detail

run

public void run(org.cytoscape.work.TaskMonitor arg0)
         throws Exception

Specified by:

run in interface org.cytoscape.work.Task

Specified by:

run in class org.cytoscape.work.AbstractTask

Throws:

Exception

setLinkNodeVisualProperties

public void setLinkNodeVisualProperties(Collection<DelayedVizProp> props,
                                        org.cytoscape.model.CyNode node)

isempty

public static boolean isempty(org.cytoscape.model.CyRow row,
                              String ColName)

Check whether the entry of Column ColName in CyRow row is empty. I.e. it is either null or its string representation is an empty string.

Parameters:

row - - The row in question

ColName - - the Column to check.

Returns:

Whether the column is empty in the given row

isempty

public static boolean isempty(Object Entry)

Check whether a given Object is either empty or an empty String

Parameters:

Entry - the Object to check

Returns:

Whether the entry is empty or represented by an empty string

setUIHelper

public void setUIHelper(org.cytoscape.work.swing.TunableUIHelper arg0)

Specified by:

setUIHelper in interface org.cytoscape.work.swing.RequestsUIHelper