X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fdatamodel%2FContactMatrixI.java;h=4e2076daa51d182cda6a26ddc06e4498c23432a0;hb=7420ce36f2b43280ef610e3743960207e4c2dbe3;hp=2b7b4ec0110c20d098988a029e3d2470e3f3c9d7;hpb=c3d17bf8cd43fe710f94a1111e845a0c435bb0c9;p=jalview.git

diff --git a/src/jalview/datamodel/ContactMatrixI.java b/src/jalview/datamodel/ContactMatrixI.java
index 2b7b4ec..4e2076d 100644
--- a/src/jalview/datamodel/ContactMatrixI.java
+++ b/src/jalview/datamodel/ContactMatrixI.java
@@ -1,5 +1,7 @@
 package jalview.datamodel;
 
+import java.util.BitSet;
+
 public interface ContactMatrixI
 {
 
@@ -9,4 +11,30 @@ public interface ContactMatrixI
 
   float getMax();
 
+  boolean hasReferenceSeq();
+
+  SequenceI getReferenceSeq();
+
+  String getAnnotDescr();
+
+  String getAnnotLabel();
+
+  /**
+   * string indicating how the contactMatrix should be rendered - stored in calcId
+   * @return 
+   */
+  String getType();
+
+  int getWidth();
+  int getHeight();
+  
+  default boolean hasGroups() {
+    return false;
+  }
+  default BitSet getGroupsFor(int column) {
+    BitSet colbitset  = new BitSet();
+    colbitset.set(column);
+    return colbitset;
+  }
+
 }