From: gmungoc <g.m.carstairs@dundee.ac.uk>
Date: Fri, 30 Mar 2018 09:37:40 +0000 (+0100)
Subject: JAL-2939 simplified way of getting hmm consensus residue
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=6ae704607182f1213b9736380f272026e0bec4f6;p=jalview.git

JAL-2939 simplified way of getting hmm consensus residue
---

diff --git a/src/jalview/analysis/AAFrequency.java b/src/jalview/analysis/AAFrequency.java
index 1553021..11c8f72 100755
--- a/src/jalview/analysis/AAFrequency.java
+++ b/src/jalview/analysis/AAFrequency.java
@@ -385,8 +385,8 @@ public class AAFrequency
       String description = isNaN ? null
               : String.format("%.4f bits", value);
       information.annotations[column] = new Annotation(
-              Character.toString(Character
-                      .toUpperCase(hmm.getConsensusAtAlignColumn(column))),
+              Character.toString(
+                      Character.toUpperCase(hmmSeq.getCharAt(column))),
               description, ' ', value);
     }