JAL-4027 JAL-3858 rename CUSTOM_RENDERER to CONTACT_MATRIX annotation.graph type...

[jalview.git] / src / jalview / datamodel / SeqDistanceContactMatrix.java

diff --git a/src/jalview/datamodel/SeqDistanceContactMatrix.java b/src/jalview/datamodel/SeqDistanceContactMatrix.java
index ee7de5e..0773e12 100644 (file)
--- a/src/jalview/datamodel/SeqDistanceContactMatrix.java
+++ b/src/jalview/datamodel/SeqDistanceContactMatrix.java
@@ -1,7 +1,5 @@
 package jalview.datamodel;
 
-import java.awt.Color;
-
 /**
  * Dummy contact matrix based on sequence distance
  * 
@@ -10,39 +8,52 @@ import java.awt.Color;
  */
 public class SeqDistanceContactMatrix implements ContactMatrixI
 {
+  private static final String SEQUENCE_DISTANCE = "SEQUENCE_DISTANCE";
   private int width = 0;
 
   public SeqDistanceContactMatrix(int width)
   {
     this.width = width;
   }
+
+  @Override
+  public float getMin()
+  {
+    return 0f;
+  }
+
+  @Override
+  public float getMax()
+  {
+    return width;
+  }
+
   @Override
   public ContactListI getContactList(final int column)
   {
-    if (column<0 || column >= width)
+    if (column < 0 || column >= width)
     {
       return null;
     }
-    return new ContactListI() {
+    return new ContactListImpl(new ContactListProviderI()
+    {
+
       int p = column;
-      @Override
-      public Color getColorForScore(int column)
-      {
-        return jalview.util.ColorUtils.getGraduatedColour(Math.abs(column-p), 0, Color.white, width, Color.magenta);
-      }
-      @Override
-      public Color getColorForRange(int from_column, int to_column)
-      {
-        return jalview.util.ColorUtils.getGraduatedColour(
-                Math.abs(to_column + from_column - 2 * p) / 2, 0, Color.white, width,
-                Color.magenta);
-      }
 
-      @Override
-      public int getColumnWidth()
-      {
-        return 1;
-      }
+      // @Override
+      // public Color getColorForScore(int column)
+      // {
+      // return jalview.util.ColorUtils.getGraduatedColour(Math.abs(column-p),
+      // 0, Color.white, width, Color.magenta);
+      // }
+      // @Override
+      // public Color getColorForRange(int from_column, int to_column)
+      // {
+      // return jalview.util.ColorUtils.getGraduatedColour(
+      // Math.abs(to_column + from_column - 2 * p) / 2, 0, Color.white, width,
+      // Color.magenta);
+      // }
+
       @Override
       public int getContactHeight()
       {
@@ -51,11 +62,48 @@ public class SeqDistanceContactMatrix implements ContactMatrixI
       }
 
       @Override
+      public int getPosition()
+      {
+        return p;
+      }
+
+      @Override
       public double getContactAt(int column)
       {
         return Math.abs(column - p);
       }
-    };
+    });
+  }
+
+  @Override
+  public boolean hasReferenceSeq()
+  {
+    // TODO Auto-generated method stub
+    return false;
+  }
+
+  @Override
+  public SequenceI getReferenceSeq()
+  {
+    // TODO Auto-generated method stub
+    return null;
   }
 
+  @Override
+  public String getAnnotDescr()
+  {
+    return "Sequence distance matrix";
+  }
+
+  @Override
+  public String getAnnotLabel()
+  {
+    return "Sequence Distance";
+  }
+
+  @Override
+  public String getType()
+  {
+    return SEQUENCE_DISTANCE;
+  }
 }