X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fanalysis%2FAAFrequency.java;h=75a777fd7af1e4e285d0bdabc8d5fa08e0817a77;hb=64e9fe452576749d247b6dca0fc231237c40f743;hp=df5ca8da8131ed49e70b089da9c9674e4b96fe8d;hpb=14ffa72a74309f6d8e7a36d73c78bb4500fc32a2;p=jalview.git

diff --git a/src/jalview/analysis/AAFrequency.java b/src/jalview/analysis/AAFrequency.java
index df5ca8d..75a777f 100755
--- a/src/jalview/analysis/AAFrequency.java
+++ b/src/jalview/analysis/AAFrequency.java
@@ -1,6 +1,6 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8)
- * Copyright (C) 2012 J Procter, AM Waterhouse, LM Lui, J Engelhardt, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1)
+ * Copyright (C) 2014 The Jalview Authors
  * 
  * This file is part of Jalview.
  * 
@@ -14,6 +14,7 @@
  * PURPOSE.  See the GNU General Public License for more details.
  * 
  * You should have received a copy of the GNU General Public License along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
  */
 package jalview.analysis;
 
@@ -181,8 +182,12 @@ public class AAFrequency
       percentage = ((float) maxCount * 100) / jSize;
       residueHash.put(PID_GAPS, new Float(percentage));
 
-      percentage = ((float) maxCount * 100) / nongap;
+      if (nongap>0) {
+        // calculate for non-gapped too
+        percentage = ((float) maxCount * 100) / nongap;
+      }
       residueHash.put(PID_NOGAPS, new Float(percentage));
+      
       result[i] = residueHash;
     }
   }