From 4dd6a7731413d5fc38e2eda95548085bb07e7baf Mon Sep 17 00:00:00 2001
From: amwaterhouse <Andrew Waterhouse>
Date: Mon, 7 May 2007 13:57:40 +0000
Subject: [PATCH] tIndex prevented deletion of last annotation

---
 src/jalview/datamodel/Alignment.java |    5 ++---
 1 file changed, 2 insertions(+), 3 deletions(-)

diff --git a/src/jalview/datamodel/Alignment.java b/src/jalview/datamodel/Alignment.java
index cec2abc..9c7f2fb 100755
--- a/src/jalview/datamodel/Alignment.java
+++ b/src/jalview/datamodel/Alignment.java
@@ -482,7 +482,7 @@ public class Alignment
     boolean swap=false;
     int tIndex = 0;
 
-    for (int i = 0; tIndex<temp.length && i < aSize; i++)
+    for (int i = 0; i < aSize; i++)
     {
       if (annotations[i] == aa)
       {
@@ -490,8 +490,7 @@ public class Alignment
         continue;
       }
 
-      temp[tIndex] = annotations[i];
-      tIndex++;
+      temp[tIndex++] = annotations[i];
     }
 
     if (swap)
-- 
1.7.10.2