X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FSeqPanel.java;h=a643ab8756a53724fbe19facd6699b1aa6dba6b8;hb=6e71f42b0a3713ddbc3054e7ea9d8f5088130ec9;hp=52d137bf316b51d7b9b3d79cd71d53eb1d9a5e1f;hpb=94f96a9c993be278b360ad15965715063db72520;p=jalview.git

diff --git a/src/jalview/gui/SeqPanel.java b/src/jalview/gui/SeqPanel.java
index 52d137b..a643ab8 100755
--- a/src/jalview/gui/SeqPanel.java
+++ b/src/jalview/gui/SeqPanel.java
@@ -60,6 +60,7 @@ public class SeqPanel
   public SeqPanel(AlignViewport avp, AlignmentPanel p)
   {
     this.av = avp;
+    setBackground(Color.white);
 
     seqCanvas = new SeqCanvas(avp);
     setLayout(new BorderLayout());
@@ -160,9 +161,9 @@ public class SeqPanel
         doMouseEnteredDefineMode(evt);
       }
     });
-    repaint();
   }
 
+
   public void doMouseReleased(MouseEvent evt)
   {
     if (seqEditOccurred > -1)
@@ -176,7 +177,7 @@ public class SeqPanel
     editingSeqs = false;
     groupEditing = false;
 
-    ap.repaint();
+    seqCanvas.repaint();
   }
 
   public void doMousePressed(MouseEvent evt)
@@ -443,14 +444,14 @@ public class SeqPanel
 
     endEdit = res;
     lastres = res;
-    repaint();
+    seqCanvas.repaint();
   }
 
   public void drawChars(int seqstart, int seqend, int start)
   {
     seqCanvas.drawPanel(seqCanvas.gg, start, av.getEndRes(), seqstart,
                         seqend, av.getStartRes(), av.getStartSeq(), 0);
-    repaint();
+    seqCanvas.repaint();
   }
 
   public void insertChar(int j, int seq)
@@ -465,7 +466,7 @@ public class SeqPanel
     seqEditOccurred = seq;
 
     av.alignment.getWidth();
-    repaint();
+    seqCanvas.repaint();
   }
 
   void editOccurred(int i)
@@ -608,24 +609,26 @@ public class SeqPanel
 
     stretchGroup.getWidth();
 
-    repaint();
+    seqCanvas.repaint();
   }
 
   public void doMouseReleasedDefineMode(MouseEvent evt)
   {
-    mouseDragging = false;
+    if(mouseDragging)
+    {
+      stretchGroup.recalcConservation();
+      mouseDragging = false;
+    }
 
     if (stretchGroup == null)
     {
       return;
     }
 
-    stretchGroup.recalcConservation();
-
     if (stretchGroup.cs instanceof ClustalxColourScheme)
     {
-      stretchGroup.cs = new ClustalxColourScheme(stretchGroup.sequences,
-                                                 av.alignment.getWidth());
+      ( (ClustalxColourScheme) stretchGroup.cs).resetClustalX(stretchGroup.sequences,
+                                                     stretchGroup.getWidth());
     }
     else if (stretchGroup.cs instanceof ConservationColourScheme)
     {
@@ -644,7 +647,7 @@ public class SeqPanel
     changeEndRes = false;
     changeStartRes = false;
     stretchGroup = null;
-    repaint();
+    seqCanvas.repaint();
     ap.idPanel.repaint();
   }
 
@@ -743,7 +746,7 @@ public class SeqPanel
       scrollThread.setEvent(evt);
     }
 
-    repaint();
+    seqCanvas.repaint();
   }
 
   public void doMouseEnteredDefineMode(MouseEvent e)