From 951d723ee7a01b954f0af39645e2f1102c1fc99a Mon Sep 17 00:00:00 2001
From: amwaterhouse <Andrew Waterhouse>
Date: Fri, 24 Feb 2006 11:38:44 +0000
Subject: [PATCH] Features are now an array, not vector

---
 src/jalview/datamodel/Sequence.java  |   27 +++++++++++++++++++++------
 src/jalview/datamodel/SequenceI.java |    4 ++--
 2 files changed, 23 insertions(+), 8 deletions(-)

diff --git a/src/jalview/datamodel/Sequence.java b/src/jalview/datamodel/Sequence.java
index d35a05b..48057b8 100755
--- a/src/jalview/datamodel/Sequence.java
+++ b/src/jalview/datamodel/Sequence.java
@@ -47,7 +47,7 @@ public class Sequence implements SequenceI
     Vector annotation;
 
     /** DOCUMENT ME!! */
-    public Vector sequenceFeatures;
+    public SequenceFeature [] sequenceFeatures;
 
     /**
      * Creates a new Sequence object.
@@ -136,25 +136,40 @@ public class Sequence implements SequenceI
      *
      * @param v DOCUMENT ME!
      */
-    public void setSequenceFeatures(Vector v)
+    public void setSequenceFeatures(SequenceFeature [] features)
     {
-        sequenceFeatures = v;
+        sequenceFeatures = features;
     }
 
     public void addSequenceFeature(SequenceFeature sf)
     {
       if(sequenceFeatures==null)
-        sequenceFeatures = new Vector();
+      {
+        sequenceFeatures = new SequenceFeature[0];
+      }
+
+      SequenceFeature [] temp = new SequenceFeature[sequenceFeatures.length+1];
+      System.arraycopy(sequenceFeatures, 0, temp, 0, sequenceFeatures.length);
+      temp[sequenceFeatures.length] = sf;
 
-      sequenceFeatures.addElement(sf);
+
+      sequenceFeatures = temp;
     }
 
+    SequenceFeature [] sfarray;
+
+        public SequenceFeature[] getsfarray()
+        {
+          return sfarray;
+        }
+
+
     /**
      * DOCUMENT ME!
      *
      * @return DOCUMENT ME!
      */
-    public Vector getSequenceFeatures()
+    public SequenceFeature [] getSequenceFeatures()
     {
         return sequenceFeatures;
     }
diff --git a/src/jalview/datamodel/SequenceI.java b/src/jalview/datamodel/SequenceI.java
index 21f7cc4..089a5f6 100755
--- a/src/jalview/datamodel/SequenceI.java
+++ b/src/jalview/datamodel/SequenceI.java
@@ -211,14 +211,14 @@ public interface SequenceI
      *
      * @return DOCUMENT ME!
      */
-    public Vector getSequenceFeatures();
+    public SequenceFeature[] getSequenceFeatures();
 
     /**
      * DOCUMENT ME!
      *
      * @param v DOCUMENT ME!
      */
-    public void setSequenceFeatures(Vector v);
+    public void setSequenceFeatures(SequenceFeature [] features);
 
     /**
      * DOCUMENT ME!
-- 
1.7.10.2