X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fdatamodel%2FSequenceFeature.java;h=4043f38d33c40dda9128a779cc3c7ee34df45c10;hb=c19d2a91ca05e052e3408bf5852d88eb5d0608f1;hp=2610ed64587830ff110e6d1d5bd7f9247df66510;hpb=ab43013b7e357b84b4abade0dba949668dfb2a0e;p=jalview.git

diff --git a/src/jalview/datamodel/SequenceFeature.java b/src/jalview/datamodel/SequenceFeature.java
index 2610ed6..4043f38 100755
--- a/src/jalview/datamodel/SequenceFeature.java
+++ b/src/jalview/datamodel/SequenceFeature.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 2.9.0b2)
+ * Copyright (C) 2015 The Jalview Authors
  * 
  * This file is part of Jalview.
  * 
@@ -20,7 +20,8 @@
  */
 package jalview.datamodel;
 
-import java.util.*;
+import java.util.Hashtable;
+import java.util.Vector;
 
 /**
  * DOCUMENT ME!
@@ -42,7 +43,7 @@ public class SequenceFeature
 
   public Hashtable otherDetails;
 
-  public java.util.Vector links;
+  public Vector<String> links;
 
   // Feature group can be set from a features file
   // as a group of features between STARTGROUP and ENDGROUP markers
@@ -90,7 +91,7 @@ public class SequenceFeature
       }
       if (cpy.links != null && cpy.links.size() > 0)
       {
-        links = new Vector();
+        links = new Vector<String>();
         for (int i = 0, iSize = cpy.links.size(); i < iSize; i++)
         {
           links.addElement(cpy.links.elementAt(i));
@@ -211,7 +212,7 @@ public class SequenceFeature
   {
     if (links == null)
     {
-      links = new java.util.Vector();
+      links = new Vector<String>();
     }
 
     links.insertElementAt(labelLink, 0);
@@ -283,7 +284,9 @@ public class SequenceFeature
     {
       String stat = (String) otherDetails.get("status");
       if (stat != null)
+      {
         return new String(stat);
+      }
     }
     return null;
   }
@@ -299,4 +302,23 @@ public class SequenceFeature
     return begin;
   }
 
+  public int getStrand()
+  {
+    String str;
+    if (otherDetails == null
+            || (str = otherDetails.get("STRAND").toString()) == null)
+    {
+      return 0;
+    }
+    if (str.equals("-"))
+    {
+      return -1;
+    }
+    if (str.equals("+"))
+    {
+      return 1;
+    }
+    return 0;
+  }
+
 }