JAL-2349 rename ContactMatrixTest to SeqDistanceContactMatrix

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

diff --git a/src/jalview/datamodel/SeqDistanceContactMatrix.java b/src/jalview/datamodel/SeqDistanceContactMatrix.java
new file mode 100644 (file)
index 0000000..ee7de5e
--- /dev/null
+++ b/src/jalview/datamodel/SeqDistanceContactMatrix.java
@@ -0,0 +1,61 @@
+package jalview.datamodel;
+
+import java.awt.Color;
+
+/**
+ * Dummy contact matrix based on sequence distance
+ * 
+ * @author jprocter
+ *
+ */
+public class SeqDistanceContactMatrix implements ContactMatrixI
+{
+  private int width = 0;
+
+  public SeqDistanceContactMatrix(int width)
+  {
+    this.width = width;
+  }
+  @Override
+  public ContactListI getContactList(final int column)
+  {
+    if (column<0 || column >= width)
+    {
+      return null;
+    }
+    return new ContactListI() {
+      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 int getContactHeight()
+      {
+        return width;
+
+      }
+
+      @Override
+      public double getContactAt(int column)
+      {
+        return Math.abs(column - p);
+      }
+    };
+  }
+
+}