Author: kono
Date: 2011-10-27 16:51:47 -0700 (Thu, 27 Oct 2011)
New Revision: 27324
Modified:
csplugins/trunk/ucsd/kono/bingo3/src/BiNGO/DisplayBiNGOWindow.java
csplugins/trunk/ucsd/kono/bingo3/src/BiNGO/GOlorize/ZSelectNodes.java
csplugins/trunk/ucsd/kono/bingo3/src/BiNGO/SettingsPanelActionListener.java
csplugins/trunk/ucsd/kono/bingo3/src/BiNGO/TheVisualStyle.java
Log:
Removed debug messages. TODO: Fix class loader problem.
Modified: csplugins/trunk/ucsd/kono/bingo3/src/BiNGO/DisplayBiNGOWindow.java
===================================================================
--- csplugins/trunk/ucsd/kono/bingo3/src/BiNGO/DisplayBiNGOWindow.java
2011-10-27 23:49:55 UTC (rev 27323)
+++ csplugins/trunk/ucsd/kono/bingo3/src/BiNGO/DisplayBiNGOWindow.java
2011-10-27 23:51:47 UTC (rev 27324)
@@ -326,45 +326,20 @@
layout.setNetworkView(view);
insertTasksAfterCurrentTask(layout.getTaskIterator());
-
- System.out.println("====DONE#");
- System.out.println("==========Create View START
=========: " + view);
TheVisualStyle vs = new TheVisualStyle(adapter,
clusterName, Double.parseDouble(alpha));
final VisualMappingManager vmm =
adapter.getVisualMappingManager();
final VisualStyle newStyle =
vs.createVisualStyle(view.getModel());
+ vmm.addVisualStyle(newStyle);
vmm.setVisualStyle(vs.createVisualStyle(view.getModel()), view);
newStyle.apply(view);
- System.out.println("==========Create View Done!!");
-
taskMonitor.setProgress(1.0);
taskMonitor.setStatusMessage("Network view successfully
create for: "
+
network.getCyRow().get(CyTableEntry.NAME, String.class));
}
-
}
- private final class ApplyStyleTask extends AbstractTask {
- private final CyNetworkView view;
-
- ApplyStyleTask(final CyNetworkView view) {
- this.view = view;
- }
-
- @Override
- public void run(TaskMonitor arg0) throws Exception {
- System.out.println("==========Create View START
========= !!");
- TheVisualStyle vs = new TheVisualStyle(adapter,
clusterName, Double.parseDouble(alpha));
- final VisualMappingManager vmm =
adapter.getVisualMappingManager();
- final VisualStyle newStyle =
vs.createVisualStyle(view.getModel());
- vmm.setVisualStyle(newStyle, view);
- newStyle.apply(view);
- System.out.println("==========Create View Done!!");
- }
-
- }
-
/**
* Method that builds up the new network.
*
Modified: csplugins/trunk/ucsd/kono/bingo3/src/BiNGO/GOlorize/ZSelectNodes.java
===================================================================
--- csplugins/trunk/ucsd/kono/bingo3/src/BiNGO/GOlorize/ZSelectNodes.java
2011-10-27 23:49:55 UTC (rev 27323)
+++ csplugins/trunk/ucsd/kono/bingo3/src/BiNGO/GOlorize/ZSelectNodes.java
2011-10-27 23:51:47 UTC (rev 27324)
@@ -68,8 +68,6 @@
public void actionPerformed(ActionEvent ev) {
- System.out.println("Selection start!!");
-
this.annotation = result.getAnnotation();
Map<String, Set<String>> alias = result.getAlias();
JTable jTable = result.getJTable();
@@ -80,10 +78,6 @@
final List<CyNode> nodes = model.getNodeList();
for (final CyNode node : nodes)
node.getCyRow().set(CyNetwork.SELECTED, false);
-
- //currentNetworkView.updateView();
-
- System.out.println("Selection cleared!!----------" +
model.getCyRow().get(CyTableEntry.NAME, String.class));
final Set<CyNode> selectedNodesSet = new
HashSet<CyNode>();
@@ -104,7 +98,6 @@
goAnnot.add(goID[t] + "");
}
}
- System.out.println("Selected
Node name = " + nodeName);
}
@@ -120,7 +113,6 @@
// this.annotation=null;
}
- System.out.println("Nodes selected = " +
selectedNodesSet.size());
for(final CyNode node: selectedNodesSet)
node.getCyRow().set(CyNetwork.SELECTED,
true);
@@ -132,7 +124,6 @@
this.annotation = null;
}
- System.out.println("Selection DONE!!");
}
private HashSet getSelectedGoSet(JTable jTable1) {
Modified:
csplugins/trunk/ucsd/kono/bingo3/src/BiNGO/SettingsPanelActionListener.java
===================================================================
--- csplugins/trunk/ucsd/kono/bingo3/src/BiNGO/SettingsPanelActionListener.java
2011-10-27 23:49:55 UTC (rev 27323)
+++ csplugins/trunk/ucsd/kono/bingo3/src/BiNGO/SettingsPanelActionListener.java
2011-10-27 23:51:47 UTC (rev 27324)
@@ -640,7 +640,6 @@
final String canonicalName =
node.getCyRow().get(CyTableEntry.NAME, String.class);
// String canonicalName =
node.getIdentifier().toUpperCase();
if (canonicalName != null && canonicalName.length() !=
0 && !canonicalNameVector.contains(canonicalName)) {
- System.out.println("Alias Size = " +
params.getAlias().size());
if
(mapNames.contains(params.getAlias().get(canonicalName))) {
redundantIDs.put(canonicalName,
(HashSet<String>)
params.getAlias().get(canonicalName));
Modified: csplugins/trunk/ucsd/kono/bingo3/src/BiNGO/TheVisualStyle.java
===================================================================
--- csplugins/trunk/ucsd/kono/bingo3/src/BiNGO/TheVisualStyle.java
2011-10-27 23:49:55 UTC (rev 27323)
+++ csplugins/trunk/ucsd/kono/bingo3/src/BiNGO/TheVisualStyle.java
2011-10-27 23:51:47 UTC (rev 27324)
@@ -184,10 +184,8 @@
public VisualStyle createVisualStyle(final CyNetwork network) {
final VisualStyleFactory vsFactory =
adapter.getVisualStyleFactory();
- final VisualMappingManager vmm =
adapter.getVisualMappingManager();
final VisualStyle visualStyle =
vsFactory.getInstance(bingoVSName);
adaptVisualStyle(visualStyle, network);
- vmm.addVisualStyle(visualStyle);
return visualStyle;
}
}
--
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.
