From: amwaterhouse <Andrew Waterhouse>
Date: Fri, 11 Feb 2005 11:04:31 +0000 (+0000)
Subject: watch out for end of seq in findposition
X-Git-Tag: Release_2_0~666
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=3479ad05402df852a7758ee89b81ec1fac3301c1;p=jalview.git

watch out for end of seq in findposition
---

diff --git a/src/jalview/datamodel/Sequence.java b/src/jalview/datamodel/Sequence.java
index cf578c0..ebdff92 100755
--- a/src/jalview/datamodel/Sequence.java
+++ b/src/jalview/datamodel/Sequence.java
@@ -184,10 +184,9 @@ public class Sequence implements SequenceI
     int j   = 0;
     int pos = start;
 
-    while (j < i)
+    while (j < i && j<sequence.length())
     {
       char c = sequence.charAt(j);
-
       if (!jalview.util.Comparison.isGap((c)))
         pos++;