From 27f51f19a31e2d2cb3543ae858b248c91c1e9428 Mon Sep 17 00:00:00 2001
From: amwaterhouse <Andrew Waterhouse>
Date: Tue, 1 May 2007 13:40:02 +0000
Subject: [PATCH] Multiple views/hidden region/undo out of index bug

---
 src/jalview/appletgui/PaintRefresher.java |    6 +++---
 src/jalview/gui/PaintRefresher.java       |    6 +++---
 2 files changed, 6 insertions(+), 6 deletions(-)

diff --git a/src/jalview/appletgui/PaintRefresher.java b/src/jalview/appletgui/PaintRefresher.java
index f7bec98..7e0edf7 100755
--- a/src/jalview/appletgui/PaintRefresher.java
+++ b/src/jalview/appletgui/PaintRefresher.java
@@ -182,7 +182,7 @@ public class PaintRefresher
 
       if (!exists)
       {
-        if (i < jSize)
+        if (i < comp.getHeight())
         {
           comp.getSequences().insertElementAt(a1[i], i);
         }
@@ -191,8 +191,6 @@ public class PaintRefresher
           comp.addSequence(a1[i]);
         }
 
-        jSize++;
-
         if (comp.getHiddenSequences().getSize() > 0)
         {
           a2 = comp.getHiddenSequences().getFullAlignment().getSequencesArray();
@@ -201,6 +199,8 @@ public class PaintRefresher
         {
           a2 = comp.getSequencesArray();
         }
+
+        jSize = a2.length;
       }
     }
 
diff --git a/src/jalview/gui/PaintRefresher.java b/src/jalview/gui/PaintRefresher.java
index 1b25385..c6d3b58 100755
--- a/src/jalview/gui/PaintRefresher.java
+++ b/src/jalview/gui/PaintRefresher.java
@@ -178,7 +178,7 @@ public class PaintRefresher
 
       if (!exists)
       {
-        if (i < jSize)
+        if (i < comp.getHeight())
         {
           comp.getSequences().insertElementAt(a1[i], i);
         }
@@ -187,8 +187,6 @@ public class PaintRefresher
           comp.addSequence(a1[i]);
         }
 
-        jSize++;
-
         if (comp.getHiddenSequences().getSize() > 0)
         {
           a2 = comp.getHiddenSequences().getFullAlignment().getSequencesArray();
@@ -197,6 +195,8 @@ public class PaintRefresher
         {
           a2 = comp.getSequencesArray();
         }
+
+        jSize = a2.length;
       }
     }
 
-- 
1.7.10.2