From: amwaterhouse <Andrew Waterhouse>
Date: Wed, 8 Jun 2005 16:37:43 +0000 (+0000)
Subject: group recalc conserve
X-Git-Tag: Release_2_0~85
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=2f6e9f2fc3f6d683df3caf63186aac36d9e5f8fc;p=jalview.git

group recalc conserve
---

diff --git a/src/jalview/appletgui/SeqPanel.java b/src/jalview/appletgui/SeqPanel.java
index 1720edc..9d14b26 100755
--- a/src/jalview/appletgui/SeqPanel.java
+++ b/src/jalview/appletgui/SeqPanel.java
@@ -545,7 +545,7 @@ public class SeqPanel
       SequenceGroup sg = new SequenceGroup();
       sg.setStartRes(res);
       sg.setEndRes(res);
-      sg.addSequence(sequence);
+      sg.addSequence(sequence, false);
       av.setSelectionGroup(sg);
       stretchGroup = sg;
 
@@ -600,11 +600,12 @@ public class SeqPanel
       return;
     }
 
+    stretchGroup.recalcConservation();
+
     if (stretchGroup.cs instanceof ClustalxColourScheme)
     {
       stretchGroup.cs = new ClustalxColourScheme(stretchGroup.sequences,
                                                  av.alignment.getWidth());
-      seqCanvas.repaint();
     }
 
     else if (stretchGroup.cs instanceof ConservationColourScheme)
@@ -614,7 +615,6 @@ public class SeqPanel
       SliderPanel.setConservationSlider(ap, stretchGroup.cs,
                                         stretchGroup.getName());
 
-      seqCanvas.repaint();
     }
     else
     {
@@ -629,6 +629,7 @@ public class SeqPanel
     changeEndRes = false;
     changeStartRes = false;
     stretchGroup = null;
+    seqCanvas.repaint();
     ap.repaint();
   }
 
@@ -705,16 +706,16 @@ public class SeqPanel
 
       if (stretchGroup.sequences.contains(nextSeq))
       {
-        stretchGroup.deleteSequence(seq);
-        stretchGroup.deleteSequence(nextSeq);
+        stretchGroup.deleteSequence(seq, false);
+        stretchGroup.deleteSequence(nextSeq, false);
       }
       else
       {
         if (seq != null)
         {
-          stretchGroup.addSequence(seq);
+          stretchGroup.addSequence(seq, false);
         }
-        stretchGroup.addSequence(nextSeq);
+        stretchGroup.addSequence(nextSeq, false);
       }
     }
     oldSeq = y;