Author: ghuck
Date: 2009-06-26 13:54:03 -0700 (Fri, 26 Jun 2009)
New Revision: 17121
Modified:
csplugins/trunk/soc/ghuck/plugin/src/GpuLayout.java
Log:
Stub of plugin...
Modified: csplugins/trunk/soc/ghuck/plugin/src/GpuLayout.java
===================================================================
--- csplugins/trunk/soc/ghuck/plugin/src/GpuLayout.java 2009-06-26 19:41:36 UTC
(rev 17120)
+++ csplugins/trunk/soc/ghuck/plugin/src/GpuLayout.java 2009-06-26 20:54:03 UTC
(rev 17121)
@@ -20,116 +20,233 @@
**************************************************************************************/
-import java.util.*;
import java.awt.event.ActionEvent;
-import javax.swing.JOptionPane;
-import giny.model.Node;
-import giny.view.NodeView;
-
+import cytoscape.Cytoscape;
import cytoscape.plugin.CytoscapePlugin;
import cytoscape.util.CytoscapeAction;
-import cytoscape.Cytoscape;
-import cytoscape.CyNetwork;
-import cytoscape.CyNode;
-import cytoscape.CyEdge;
-import cytoscape.view.CyNetworkView;
-import cytoscape.data.Semantics;
+import cytoscape.layout.CyLayouts;
+import cytoscape.layout.CyLayoutAlgorithm;
+import cytoscape.layout.AbstractLayout;
+import cytoscape.layout.LayoutProperties;
+import cytoscape.layout.Tunable;
-import cytoscape.plugin.CytoscapePlugin;
-import cytoscape.view.cytopanels.CytoPanelImp;
-import javax.swing.SwingConstants;
+import giny.model.GraphPerspective;
+import giny.model.Node;
+
+import javax.swing.JOptionPane;
import javax.swing.JPanel;
+import java.awt.GridLayout;
+import java.awt.Rectangle;
+import java.util.Iterator;
-/**
- */
-public class GpuLayout extends CytoscapePlugin
- //implements CyGroupViewer,
- //NodeContextMenuListener,
- //PropertyChangeListener
-{
- /**
- * This constructor creates an action and adds it to the Plugins menu.
- */
- public GpuLayout() {
+
+
+/**
+ * This plugin provides a GPU assited graph layout utility by calling CUDA C++
code
+ */
+public class GpuLayout extends CytoscapePlugin {
- /* Show message on screen */
-
- String message = "GPU Graph Layout Loaded!";
+ private int coarseGraphSize = 50;
+ private int interpolationIterations = 50;
+ private int levelConvergence = 2;
+ private int edgeLen = 5;
+ private int initialNoIterations = 300;
- // Use the CytoscapeDesktop as parent for a Swing dialog
- JOptionPane.showMessageDialog( Cytoscape.getDesktop(), message);
+ private int groupcount = 2;
+ private LayoutProperties layoutProperties;
+
- /* Add Button to Menu */
+ /**
+ *
+ */
+ public GpuLayout() {
+ // Show message on screen
+ String message = "GPU Graph Layout Loaded!\n"
+ + coarseGraphSize + "\n"
+ + interpolationIterations + "\n"
+ + levelConvergence + "\n"
+ + edgeLen + "\n"
+ + initialNoIterations;
+ // Use the CytoscapeDesktop as parent for a Swing dialog
+ JOptionPane.showMessageDialog( Cytoscape.getDesktop(), message);
- //create a new action to respond to menu activation
- GpuLayoutAction action = new GpuLayoutAction();
+ // Add Layout to menu
+ CyLayouts.addLayout(new ForceDirected(), "GPU Assisted Layout");
+ }
+
+ class ForceDirected extends AbstractLayout{
+ /**
+ * Creates a new layout object.
+ */
+ public ForceDirected() {
+ super();
+ layoutProperties = new LayoutProperties(getName());
+ initialize_properties();
+ }
+
+ protected void initialize_properties() {
+ layoutProperties.add(new Tunable("", "Coarse Graph
Size" , Tunable.INTEGER, new Integer(45) ));
+ layoutProperties.add(new Tunable("", "Interpolation
Iterations" , Tunable.INTEGER, new Integer(50) ));
+ layoutProperties.add(new Tunable("", "Level
Convergence" , Tunable.INTEGER, new Integer(2) ));
+ layoutProperties.add(new Tunable("", "Ideal Edge
Length" , Tunable.INTEGER, new Integer(5) ));
+ layoutProperties.add(new Tunable("", "Initial Number of
Iterations", Tunable.INTEGER, new Integer(300)));
- //set the preferred menu
- action.setPreferredMenu("Layout");
- //and add it to the menus
- Cytoscape.getDesktop().getCyMenus().addAction(action);
+ layoutProperties.initializeProperties();
- }
+ updateSettings(true);
+ }
- class MyPanel extends JPanel {
- public MyPanel() {
- }
- }
+ /**
+ * DOCUMENT ME!
+ */
+ public void updateSettings() {
+ updateSettings(false);
+ }
+ /**
+ * DOCUMENT ME!
+ *
+ * @param force DOCUMENT ME!
+ */
+ public void updateSettings(boolean force) {
+ layoutProperties.updateValues();
+ Tunable t;
+ // Get coarseGraphSize
+ t = layoutProperties.get("Coarse Graph Size");
+ if ((t != null) && (t.valueChanged() || force))
+ coarseGraphSize = ((Integer)
t.getValue()).intValue();
+ // Get interpolationIterations
+ t = layoutProperties.get("Interpolation Iterations");
+ if ((t != null) && (t.valueChanged() || force))
+ interpolationIterations = ((Integer)
t.getValue()).intValue();
-
- /**
- * Gives a description of this plugin.
- */
- /* public String describe() {
- StringBuffer sb = new StringBuffer();
- sb.append("Bla Bla... ");
- sb.append(" more Bla.. ");
- return sb.toString();
- }
- */
-
-
- /**
- * This class gets attached to the menu item.
- */
- public class GpuLayoutAction extends CytoscapeAction
- {
-
- /**
- * The constructor sets the text that should appear on the menu item.
- */
- public GpuLayoutAction() {
- super("GPU Layout Plugin");
- }
-
- /**
- * This method is called when the user selects the menu item.
- */
- public void actionPerformed(ActionEvent ae) {
+ // Get levelConvergence
+ t = layoutProperties.get("Level Convergence");
+ if ((t != null) && (t.valueChanged() || force))
+ levelConvergence = ((Integer)
t.getValue()).intValue();
- /* Show message on screen */
+ // Get edgeLen
+ t = layoutProperties.get("Ideal Edge Length");
+ if ((t != null) && (t.valueChanged() || force))
+ edgeLen = ((Integer) t.getValue()).intValue();
+
+ // Get initialNoIterations
+ t = layoutProperties.get("Initial Number of
Iterations");
+ if ((t != null) && (t.valueChanged() || force))
+ initialNoIterations = ((Integer)
t.getValue()).intValue();
- String message = "Execute GPU Layout!";
- // use the CytoscapeDesktop as parent for a Swing dialog
- JOptionPane.showMessageDialog( Cytoscape.getDesktop(), message);
+ // Show message on screen
+ String message = "Preferences updated\n"
+ + coarseGraphSize + "\n"
+ + interpolationIterations + "\n"
+ + levelConvergence + "\n"
+ + edgeLen + "\n"
+ + initialNoIterations;
+ // Use the CytoscapeDesktop as parent for a Swing dialog
+ JOptionPane.showMessageDialog( Cytoscape.getDesktop(),
message);
+
+ }
+ /**
+ * Get the settings panel for this layout
+ */
+ public JPanel getSettingsPanel() {
+ JPanel panel = new JPanel(new GridLayout(0, 5));
+ panel.add(layoutProperties.getTunablePanel());
+
+ return panel;
+ }
+
+
+ /**
+ * DOCUMENT ME!
+ */
+ public void revertSettings() {
+ layoutProperties.revertProperties();
+ }
+
+ public LayoutProperties getSettings() {
+ return layoutProperties;
+ }
+
+ /**
+ * DOCUMENT ME!
+ */
+ public void construct() {
+ taskMonitor.setStatus("Initializing");
+ initialize(); // Calls initialize_local
+
+ System.out.println("do layout here: groupcount = " +
groupcount);
+ if (groupcount<2) {
+ return;
+ }
+ // Get the group center X
+ double[] group_center_x = new double[groupcount];
+
+ for (int i=0; i<groupcount; i++) {
+ group_center_x[i] = i* maxwidth/(groupcount*2);
+ }
+
+ double group_width = (maxwidth/groupcount)*0.6/2;
+
+ Iterator<Node> it = network.nodesIterator();
+
+ int group_id = 0;
+
+ while (it.hasNext()) {
+ if (canceled)
+ return;
+
+ group_id = (int)
Math.round((groupcount-1)*Math.random());
+
+ double x = group_center_x[group_id] +
(Math.random()-0.5)*group_width;
+
+ Node node = (Node) it.next();
+
+ //System.out.println(group_id);
+
+ networkView.getNodeView(node).setXPosition(x);
+ }
+ }
+
+ private double maxwidth = 5000.0;
+
+ /**
+ * getName is used to construct property strings
+ * for this layout.
+ */
+ public String getName() {
+ return "Force Directed GPU Layout";
+ }
+
+ /**
+ * toString is used to get the user-visible name
+ * of the layout
+ */
+ public String toString(){
+ return "Force Directed Layout";
+ }
}
-
- }
}
+
+
+
+
+
+
+
--~--~---------~--~----~------------~-------~--~----~
You received this message because you are subscribed to the Google Groups
"cytoscape-cvs" group.
To post to this group, send email to [email protected]
To unsubscribe from this group, send email to
[email protected]
For more options, visit this group at
http://groups.google.com/group/cytoscape-cvs?hl=en
-~----------~----~----~----~------~----~------~--~---
