X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FPCAPanel.java;h=f07993ca7130c3f41250c5f4eb15e3b2af1144a1;hb=7ab5d6b0ba5fec1ea4a4239e79c476d841622485;hp=213b74841ae71c644f57b51064b5a989f3618ddd;hpb=1889827c44c51f6353fe8619e5d44b421158af23;p=jalview.git

diff --git a/src/jalview/gui/PCAPanel.java b/src/jalview/gui/PCAPanel.java
index 213b748..f07993c 100644
--- a/src/jalview/gui/PCAPanel.java
+++ b/src/jalview/gui/PCAPanel.java
@@ -112,11 +112,12 @@ public class PCAPanel extends GPCAPanel implements Runnable,
     Thread worker = new Thread(this);
     worker.start();
   }
+
   @Override
   protected void scoreMatrix_menuSelected()
   {
     scoreMatrixMenu.removeAll();
-    for (final String sm:ResidueProperties.scoreMatrices.keySet())
+    for (final String sm : ResidueProperties.scoreMatrices.keySet())
     {
       if (ResidueProperties.getScoreMatrix(sm) != null)
       {
@@ -149,6 +150,7 @@ public class PCAPanel extends GPCAPanel implements Runnable,
       }
     }
   }
+
   public void bgcolour_actionPerformed(ActionEvent e)
   {
     Color col = JColorChooser.showDialog(this, "Select Background Colour",
@@ -204,8 +206,8 @@ public class PCAPanel extends GPCAPanel implements Runnable,
     if (getParent() == null)
     {
       addKeyListener(rc);
-      Desktop.addInternalFrame(this, MessageManager.getString("label.principal_component_analysis"), 475,
-              450);
+      Desktop.addInternalFrame(this, MessageManager
+              .getString("label.principal_component_analysis"), 475, 450);
     }
   }
 
@@ -302,7 +304,8 @@ public class PCAPanel extends GPCAPanel implements Runnable,
     try
     {
       cap.setText(pcaModel.getDetails());
-      Desktop.addInternalFrame(cap, MessageManager.getString("label.pca_details"), 500, 500);
+      Desktop.addInternalFrame(cap,
+              MessageManager.getString("label.pca_details"), 500, 500);
     } catch (OutOfMemoryError oom)
     {
       new OOMWarning("opening PCA details", oom);
@@ -376,8 +379,10 @@ public class PCAPanel extends GPCAPanel implements Runnable,
         // af.addSortByOrderMenuItem(ServiceName + " Ordering",
         // msaorder);
 
-        Desktop.addInternalFrame(af, MessageManager.formatMessage("label.original_data_for_params", new String[]{this.title}),
-                AlignFrame.DEFAULT_WIDTH, AlignFrame.DEFAULT_HEIGHT);
+        Desktop.addInternalFrame(af, MessageManager.formatMessage(
+                "label.original_data_for_params", new String[]
+                { this.title }), AlignFrame.DEFAULT_WIDTH,
+                AlignFrame.DEFAULT_HEIGHT);
       }
     }
     /*
@@ -487,7 +492,6 @@ public class PCAPanel extends GPCAPanel implements Runnable,
     }
   }
 
-  
   public void viewMenu_menuSelected()
   {
     buildAssociatedViewMenu();
@@ -566,7 +570,9 @@ public class PCAPanel extends GPCAPanel implements Runnable,
       cap.setText(pcaModel.getPointsasCsv(false,
               xCombobox.getSelectedIndex(), yCombobox.getSelectedIndex(),
               zCombobox.getSelectedIndex()));
-      Desktop.addInternalFrame(cap, MessageManager.formatMessage("label.points_for_params", new String[]{this.getTitle()}), 500, 500);
+      Desktop.addInternalFrame(cap, MessageManager.formatMessage(
+              "label.points_for_params", new String[]
+              { this.getTitle() }), 500, 500);
     } catch (OutOfMemoryError oom)
     {
       new OOMWarning("exporting PCA points", oom);
@@ -589,8 +595,9 @@ public class PCAPanel extends GPCAPanel implements Runnable,
       cap.setText(pcaModel.getPointsasCsv(true,
               xCombobox.getSelectedIndex(), yCombobox.getSelectedIndex(),
               zCombobox.getSelectedIndex()));
-      Desktop.addInternalFrame(cap, MessageManager.formatMessage("label.transformed_points_for_params", new String[]{this.getTitle()}),
-              500, 500);
+      Desktop.addInternalFrame(cap, MessageManager.formatMessage(
+              "label.transformed_points_for_params", new String[]
+              { this.getTitle() }), 500, 500);
     } catch (OutOfMemoryError oom)
     {
       new OOMWarning("exporting transformed PCA points", oom);
@@ -668,7 +675,8 @@ public class PCAPanel extends GPCAPanel implements Runnable,
     final JPanel progressPanel = (JPanel) progressBars.get(new Long(id));
     if (handler.canCancel())
     {
-      JButton cancel = new JButton(MessageManager.getString("action.cancel"));
+      JButton cancel = new JButton(
+              MessageManager.getString("action.cancel"));
       final IProgressIndicator us = this;
       cancel.addActionListener(new ActionListener()
       {