Author: pwang
Date: 2012-02-10 16:54:45 -0800 (Fri, 10 Feb 2012)
New Revision: 28240
Modified:
csplugins/trunk/ucsd/pwang/subnetworkByCategory/src/main/java/org/cytoscape/subnetwork/SubnetworkByCategory.java
csplugins/trunk/ucsd/pwang/subnetworkByCategory/src/main/java/org/cytoscape/subnetwork/SubnetworkByCategoryAction.java
Log:
Apply visual style if it is defined
Modified:
csplugins/trunk/ucsd/pwang/subnetworkByCategory/src/main/java/org/cytoscape/subnetwork/SubnetworkByCategory.java
===================================================================
---
csplugins/trunk/ucsd/pwang/subnetworkByCategory/src/main/java/org/cytoscape/subnetwork/SubnetworkByCategory.java
2012-02-11 00:18:15 UTC (rev 28239)
+++
csplugins/trunk/ucsd/pwang/subnetworkByCategory/src/main/java/org/cytoscape/subnetwork/SubnetworkByCategory.java
2012-02-11 00:54:45 UTC (rev 28240)
@@ -16,7 +16,7 @@
public class SubnetworkByCategory {
- public void execute(CyNetwork net, String attributeName){
+ public CyNetwork execute(CyNetwork net, String attributeName){
// 1. get the node list for each category
HashMap categoryMap = getNodeCategoryMap(net, attributeName);
@@ -35,7 +35,9 @@
final CyNetwork overview =
Cytoscape.createNetwork(overview_nodes, overview_edges, "Overview of category
", net, false);
// 4. Create a view for overview network
- Cytoscape.createNetworkView(overview, overview.getTitle());
+ Cytoscape.createNetworkView(overview, overview.getTitle());
+
+ return overview;
}
Modified:
csplugins/trunk/ucsd/pwang/subnetworkByCategory/src/main/java/org/cytoscape/subnetwork/SubnetworkByCategoryAction.java
===================================================================
---
csplugins/trunk/ucsd/pwang/subnetworkByCategory/src/main/java/org/cytoscape/subnetwork/SubnetworkByCategoryAction.java
2012-02-11 00:18:15 UTC (rev 28239)
+++
csplugins/trunk/ucsd/pwang/subnetworkByCategory/src/main/java/org/cytoscape/subnetwork/SubnetworkByCategoryAction.java
2012-02-11 00:54:45 UTC (rev 28240)
@@ -1,20 +1,14 @@
package org.cytoscape.subnetwork;
import cytoscape.Cytoscape;
-import cytoscape.data.CyAttributes;
-import cytoscape.data.Semantics;
import cytoscape.util.CytoscapeAction;
import java.awt.event.ActionEvent;
+import java.net.URL;
import cytoscape.CyNetwork;
-import cytoscape.CyNode;
-import cytoscape.CyEdge;
-import java.util.HashMap;
-import java.util.HashSet;
-import java.util.Set;
-import java.util.Vector;
-import java.util.Iterator;
-import java.util.List;
+import cytoscape.view.CyNetworkView;
+import cytoscape.layout.CyLayoutAlgorithm;
+import cytoscape.visual.VisualStyle;
/**
* A simple action. Change the names as appropriate and
@@ -25,6 +19,9 @@
private static final long serialVersionUID =
123456789023451239L;
+ private static final URL vizmapPropsLocation =
SubnetworkByCategoryAction.class.getResource("/subnetwork_overview_VS.props");
+ private VisualStyle overviewVS = null;
+
public SubnetworkByCategoryAction() {
// Give your action a name here
super("Subnetwork by Category");
@@ -33,21 +30,28 @@
// to live in the Plugins menu, so choose whatever
// is appropriate!
setPreferredMenu("Plugins");
+
+ // Create visualStyles based on the definition in
property files
+ if (vizmapPropsLocation != null){
+
Cytoscape.firePropertyChange(Cytoscape.VIZMAP_LOADED, null,
vizmapPropsLocation);
+ overviewVS =
Cytoscape.getVisualMappingManager().getCalculatorCatalog().getVisualStyle("subnetwork_overview");
+ }
+
}
public void actionPerformed(ActionEvent e) {
- String attributeName = "Category";// this is the
default attribute name
+// String attributeName = "Category";// this is the
default attribute name
// get attributeName (Type String or int) from user
String[] attrNames =
Cytoscape.getNodeAttributes().getAttributeNames();
ChooseCategoryAttributeDialog dlg = new
ChooseCategoryAttributeDialog(Cytoscape.getDesktop(), true, attrNames);
-
dlg.setVisible(true);
if (dlg.getSelectedAttribute() == null){
+ // User clicked cancel button
return;
}
@@ -55,7 +59,19 @@
SubnetworkByCategory w = new SubnetworkByCategory();
- w.execute(net, dlg.getSelectedAttribute());
+ CyNetwork overviewNetwork = w.execute(net,
dlg.getSelectedAttribute());
+ CyNetworkView view =
Cytoscape.getNetworkView(overviewNetwork.getIdentifier());
+ if (view != null){
+ //Apply VisualStyle
+ if (this.overviewVS != null){
+
view.setVisualStyle(this.overviewVS.getName());
+ view.redrawGraph(false, true);
+ }
+
+ // apply layout -- force-directed
+ CyLayoutAlgorithm alg =
cytoscape.layout.CyLayouts.getLayout("force-directed");
+ view.applyLayout(alg);
+ }
}
}
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