updated build.xml

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

diff --git a/src/jalview/io/SequenceAnnotationReport.java b/src/jalview/io/SequenceAnnotationReport.java
index 93f67d3..7c96d45 100644 (file)
--- a/src/jalview/io/SequenceAnnotationReport.java
+++ b/src/jalview/io/SequenceAnnotationReport.java
@@ -1,6 +1,6 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2b1)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
  * 
  * This file is part of Jalview.
  * 
@@ -20,16 +20,17 @@
  */
 package jalview.io;
 
-import java.util.ArrayList;
-import java.util.Hashtable;
-import java.util.List;
-import java.util.Vector;
 
 import jalview.datamodel.DBRefEntry;
 import jalview.datamodel.SequenceFeature;
 import jalview.datamodel.SequenceI;
 import jalview.util.UrlLink;
 
+import java.util.ArrayList;
+import java.util.Hashtable;
+import java.util.List;
+
+
 /**
  * generate HTML reports for a sequence
  * 
@@ -179,7 +180,7 @@ public class SequenceAnnotationReport
           }
           else
           {
-            for (String urlstring : (Vector<String>) feature.links)
+            for (String urlstring : feature.links)
             {
               try
               {
@@ -364,7 +365,7 @@ public class SequenceAnnotationReport
     }
 
     // ADD NON POSITIONAL SEQUENCE INFO
-    SequenceFeature[] features = ds.getSequenceFeatures();
+    SequenceFeature[] features = sequence.getSequenceFeatures();
     if (showNpFeats && features != null)
     {
       for (int i = 0; i < features.length; i++)