X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FAlignFrame.java;h=b32acef6d979acc4f97a7b22b9b3459843391e57;hb=933e28e48b4f3bf98851cedd99ef345d45bf25a3;hp=0b785271688f3f002e4887959428af33956fe2f1;hpb=b5667f39acdf309cd92881b73edfda591e0acaf4;p=jalview.git

diff --git a/src/jalview/appletgui/AlignFrame.java b/src/jalview/appletgui/AlignFrame.java
index 0b78527..b32acef 100644
--- a/src/jalview/appletgui/AlignFrame.java
+++ b/src/jalview/appletgui/AlignFrame.java
@@ -1324,6 +1324,14 @@ public class AlignFrame extends EmbmenuFrame implements ActionListener,
     {
       sortGroupMenuItem_actionPerformed();
     }
+    else if (source == sortEValueMenuItem)
+    {
+      sortEValueMenuItem_actionPerformed();
+    }
+    else if (source == sortBitScoreMenuItem)
+    {
+      sortBitScoreMenuItem_actionPerformed();
+    }
     else if (source == removeRedundancyMenuItem)
     {
       removeRedundancyMenuItem_actionPerformed();
@@ -2772,6 +2780,26 @@ public class AlignFrame extends EmbmenuFrame implements ActionListener,
 
   }
 
+  public void sortEValueMenuItem_actionPerformed()
+  {
+    SequenceI[] oldOrder = viewport.getAlignment().getSequencesArray();
+    AlignmentSorter.sortByEValue(viewport.getAlignment());
+    addHistoryItem(new OrderCommand("Group Sort", oldOrder,
+            viewport.getAlignment()));
+    alignPanel.paintAlignment(true, false);
+
+  }
+
+  public void sortBitScoreMenuItem_actionPerformed()
+  {
+    SequenceI[] oldOrder = viewport.getAlignment().getSequencesArray();
+    AlignmentSorter.sortByBitScore(viewport.getAlignment());
+    addHistoryItem(new OrderCommand("Group Sort", oldOrder,
+            viewport.getAlignment()));
+    alignPanel.paintAlignment(true, false);
+
+  }
+
   public void removeRedundancyMenuItem_actionPerformed()
   {
     new RedundancyPanel(alignPanel);
@@ -3122,6 +3150,10 @@ public class AlignFrame extends EmbmenuFrame implements ActionListener,
 
   MenuItem sortGroupMenuItem = new MenuItem();
 
+  MenuItem sortEValueMenuItem = new MenuItem();
+
+  MenuItem sortBitScoreMenuItem = new MenuItem();
+
   MenuItem removeRedundancyMenuItem = new MenuItem();
 
   MenuItem pairwiseAlignmentMenuItem = new MenuItem();