X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FCalculationChooser.java;h=a9f396634a63e9746e8ce405380ada7ec38b087e;hb=3d0101179759ef157b088ea135423cd909512d9f;hp=8a95594f133d5d431acd9c0b7485783a25704a7f;hpb=7c70cb09e9de68ab567e38520d6d09f0c17a3939;p=jalview.git

diff --git a/src/jalview/gui/CalculationChooser.java b/src/jalview/gui/CalculationChooser.java
index 8a95594..a9f3966 100644
--- a/src/jalview/gui/CalculationChooser.java
+++ b/src/jalview/gui/CalculationChooser.java
@@ -164,14 +164,14 @@ public class CalculationChooser extends JPanel
     JPanel treePanel = new JPanel(new FlowLayout(FlowLayout.LEFT));
     treePanel.setOpaque(false);
 
-    treePanel.setBorder(BorderFactory.createTitledBorder(MessageManager
-            .getString("label.tree")));
+    treePanel.setBorder(BorderFactory
+            .createTitledBorder(MessageManager.getString("label.tree")));
 
     // then copy the inset dimensions for the border-less PCA panel
     JPanel pcaBorderless = new JPanel(new FlowLayout(FlowLayout.LEFT));
     Insets b = treePanel.getBorder().getBorderInsets(treePanel);
-    pcaBorderless.setBorder(BorderFactory.createEmptyBorder(2, b.left, 2,
-            b.right));
+    pcaBorderless.setBorder(
+            BorderFactory.createEmptyBorder(2, b.left, 2, b.right));
     pcaBorderless.setOpaque(false);
 
     pcaBorderless.add(pca, FlowLayout.LEFT);
@@ -186,7 +186,7 @@ public class CalculationChooser extends JPanel
     calcTypes.add(pca);
     calcTypes.add(neighbourJoining);
     calcTypes.add(averageDistance);
-    
+
     ActionListener calcChanged = new ActionListener()
     {
       @Override
@@ -335,8 +335,8 @@ public class CalculationChooser extends JPanel
    */
   private boolean checkEnabled(JRadioButton calc, int size, int minsize)
   {
-    String ttip = MessageManager.formatMessage(
-            "label.you_need_at_least_n_sequences", minsize);
+    String ttip = MessageManager
+            .formatMessage("label.you_need_at_least_n_sequences", minsize);
 
     calc.setEnabled(size >= minsize);
     if (!calc.isEnabled())
@@ -383,7 +383,8 @@ public class CalculationChooser extends JPanel
       @Override
       public void mouseEntered(MouseEvent e)
       {
-        scoreModelsCombo.setToolTipText(tips.get(scoreModelsCombo.getSelectedIndex()));
+        scoreModelsCombo.setToolTipText(
+                tips.get(scoreModelsCombo.getSelectedIndex()));
       }
 
       @Override
@@ -490,19 +491,17 @@ public class CalculationChooser extends JPanel
     SequenceGroup sg = viewport.getSelectionGroup();
     if (sg != null && sg.getSize() < MIN_TREE_SELECTION)
     {
-      JvOptionPane
-              .showMessageDialog(
-                      Desktop.desktop,
-                      MessageManager
-              .formatMessage("label.you_need_at_least_n_sequences",
+      JvOptionPane.showMessageDialog(Desktop.desktop,
+              MessageManager.formatMessage(
+                      "label.you_need_at_least_n_sequences",
                       MIN_TREE_SELECTION),
-                      MessageManager
-                              .getString("label.not_enough_sequences"),
-                      JvOptionPane.WARNING_MESSAGE);
+              MessageManager.getString("label.not_enough_sequences"),
+              JvOptionPane.WARNING_MESSAGE);
       return;
     }
 
-    String treeType = neighbourJoining.isSelected() ? TreeBuilder.NEIGHBOUR_JOINING
+    String treeType = neighbourJoining.isSelected()
+            ? TreeBuilder.NEIGHBOUR_JOINING
             : TreeBuilder.AVERAGE_DISTANCE;
     af.newTreePanel(treeType, modelName, params);
   }
@@ -522,14 +521,16 @@ public class CalculationChooser extends JPanel
      * this check in in case this method gets exposed programmatically in future
      */
     if (((viewport.getSelectionGroup() != null)
-            && (viewport.getSelectionGroup().getSize() < MIN_PCA_SELECTION) && (viewport
-            .getSelectionGroup().getSize() > 0))
+            && (viewport.getSelectionGroup().getSize() < MIN_PCA_SELECTION)
+            && (viewport.getSelectionGroup().getSize() > 0))
             || (viewport.getAlignment().getHeight() < MIN_PCA_SELECTION))
     {
-      JvOptionPane.showInternalMessageDialog(this, MessageManager
-              .formatMessage("label.you_need_at_least_n_sequences",
-                      MIN_PCA_SELECTION), MessageManager
-              .getString("label.sequence_selection_insufficient"),
+      JvOptionPane.showInternalMessageDialog(this,
+              MessageManager.formatMessage(
+                      "label.you_need_at_least_n_sequences",
+                      MIN_PCA_SELECTION),
+              MessageManager
+                      .getString("label.sequence_selection_insufficient"),
               JvOptionPane.WARNING_MESSAGE);
       return;
     }
@@ -575,7 +576,8 @@ public class CalculationChooser extends JPanel
      */
     boolean matchGap = doPCA ? false : treeMatchGaps;
 
-    return new SimilarityParams(includeGapGap, matchGap, includeGapResidue, matchOnShortestLength);
+    return new SimilarityParams(includeGapGap, matchGap, includeGapResidue,
+            matchOnShortestLength);
   }
 
   /**