X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fdatamodel%2FSequenceI.java;h=089a5f68e5491351841bd88eb617f9005caafd53;hb=9807ea8cc4e867378c52d51b832168d4bc611d29;hp=b7c919782d34612c66cd1ebe14331ae12e433e17;hpb=efc31b4a8d5cee63555586804a2b79c06bdb5a14;p=jalview.git

diff --git a/src/jalview/datamodel/SequenceI.java b/src/jalview/datamodel/SequenceI.java
index b7c9197..089a5f6 100755
--- a/src/jalview/datamodel/SequenceI.java
+++ b/src/jalview/datamodel/SequenceI.java
@@ -45,6 +45,7 @@ public interface SequenceI
      */
     public String getName();
 
+
     /**
      * DOCUMENT ME!
      *
@@ -64,7 +65,7 @@ public interface SequenceI
      *
      * @return DOCUMENT ME!
      */
-    public String getDisplayId();
+    public String getDisplayId(boolean jvsuffix);
 
     /**
      * DOCUMENT ME!
@@ -210,26 +211,49 @@ 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!
      *
      * @param id DOCUMENT ME!
      */
-    public void setPDBId(String id);
+    public void setPDBId(Vector ids);
 
     /**
      * DOCUMENT ME!
      *
      * @return DOCUMENT ME!
      */
-    public String getPDBId();
+    public Vector getPDBId();
+
+    public void addPDBId(PDBEntry entry);
+
+    public String getVamsasId();
+
+    public void setVamsasId(String id);
+
+    public void setDBRef(Vector dbs);
+
+    public Vector getDBRef();
+
+    public void addDBRef(DBRefEntry entry);
+
+    public void addSequenceFeature(SequenceFeature sf);
+
+    public void setDatasetSequence(SequenceI seq);
+
+    public SequenceI getDatasetSequence();
+
+    public AlignmentAnnotation [] getAnnotation();
+
+    public void addAlignmentAnnotation(AlignmentAnnotation annotation);
+
 }