Merge branch 'releases/Release_2_11_3_Branch'

[jalview.git] / src / jalview / analysis / CodingUtils.java

diff --git a/src/jalview/analysis/CodingUtils.java b/src/jalview/analysis/CodingUtils.java
index a434465..7fb0eb8 100644 (file)
--- a/src/jalview/analysis/CodingUtils.java
+++ b/src/jalview/analysis/CodingUtils.java
@@ -1,3 +1,23 @@
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ * 
+ * This file is part of Jalview.
+ * 
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License 
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *  
+ * Jalview is distributed in the hope that it will be useful, but 
+ * WITHOUT ANY WARRANTY; without even the implied warranty 
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
+ * 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;
 
 /**
@@ -89,6 +109,15 @@ public class CodingUtils
     return result;
   }
 
+  public static void decodeCodon2(int encoded, char[] result)
+  {
+    result[2] = decodeNucleotide(encoded & 3);
+    encoded = encoded >>> CODON_ENCODING_BITSHIFT;
+    result[1] = decodeNucleotide(encoded & 3);
+    encoded = encoded >>> CODON_ENCODING_BITSHIFT;
+    result[0] = decodeNucleotide(encoded & 3);
+  }
+
   /**
    * Convert value 0/1/2/3 to 'A'/'C'/'G'/'T'
    *