aaIndex replaces aaHash

[jalview.git] / src / jalview / io / AlignFile.java

diff --git a/src/jalview/io/AlignFile.java b/src/jalview/io/AlignFile.java
index df9d535..0691d82 100755 (executable)
--- a/src/jalview/io/AlignFile.java
+++ b/src/jalview/io/AlignFile.java
@@ -114,8 +114,7 @@ public abstract class AlignFile extends FileParse
     protected boolean isValidProteinSequence(String sequence)\r
     {\r
         for (int i = 0; i < sequence.length(); i++)\r
-            if (!jalview.schemes.ResidueProperties.aaHash.containsKey(\r
-                        String.valueOf(sequence.charAt(i))))\r
+            if (jalview.schemes.ResidueProperties.aaIndex[sequence.charAt(i)]==-1)\r
             {\r
                 invalidCharacter = sequence.charAt(i);\r
                 return false;\r