JAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensing glob

[jalview.git] / src / jalview / io / Gff3File.java

diff --git a/src/jalview/io/Gff3File.java b/src/jalview/io/Gff3File.java
index 53179e0..4d8ea94 100644 (file)
--- a/src/jalview/io/Gff3File.java
+++ b/src/jalview/io/Gff3File.java
@@ -1,3 +1,23 @@
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9)
+ * Copyright (C) 2015 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.io;
 
 import jalview.api.AlignViewportI;
@@ -100,6 +120,7 @@ public class Gff3File extends FeaturesFile
   AlignmentI dataset;
 
   List<AlignmentI> alignments;
+
   @Override
   public void parse()
   {
@@ -118,8 +139,7 @@ public class Gff3File extends FeaturesFile
     }
     else
     {
-      dataset = new Alignment(new SequenceI[]
-      {});
+      dataset = new Alignment(new SequenceI[] {});
     }
 
     boolean parseResult = parse(dataset, null, null, false, true);
@@ -139,7 +159,7 @@ public class Gff3File extends FeaturesFile
   }
 
   @Override
-  public void addProperties(Alignment al)
+  public void addProperties(AlignmentI al)
   {
     super.addProperties(al);
     if (dataset.getCodonFrames() != null)