From 6d2ac2cbcb07793b6012462179791b3f6bf95414 Mon Sep 17 00:00:00 2001
From: amwaterhouse <Andrew Waterhouse>
Date: Tue, 30 Jan 2007 18:23:35 +0000
Subject: [PATCH] Check valid residues in ss

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

diff --git a/src/jalview/datamodel/AlignmentAnnotation.java b/src/jalview/datamodel/AlignmentAnnotation.java
index 6dcf23b..66ea733 100755
--- a/src/jalview/datamodel/AlignmentAnnotation.java
+++ b/src/jalview/datamodel/AlignmentAnnotation.java
@@ -129,10 +129,11 @@ public class AlignmentAnnotation
         if (annotations[i].displayCharacter.length()==1
             && !annotations[i].displayCharacter.equals("H")
             && !annotations[i].displayCharacter.equals("E")
-            && !annotations[i].displayCharacter.equals("-"))
+            && !annotations[i].displayCharacter.equals("-")
+            && !annotations[i].displayCharacter.equals("."))
         {
           if(jalview.schemes.ResidueProperties.aaIndex
-             [annotations[i].displayCharacter.charAt(0)]>0)
+             [annotations[i].displayCharacter.charAt(0)]<23)
           {
             nonSSLabel = true;
           }
-- 
1.7.10.2