From: Jim Procter <jprocter@issues.jalview.org>
Date: Tue, 17 Jan 2017 15:54:06 +0000 (+0000)
Subject: JAL-2349 rename ContactMatrixTest to SeqDistanceContactMatrix
X-Git-Tag: Release_2_11_4_0~562^2~9^2~13
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=3e88ca066c0cc12f1f1f4c63e9cd49e19586b2bd;p=jalview.git

JAL-2349 rename ContactMatrixTest to SeqDistanceContactMatrix
---

diff --git a/src/jalview/datamodel/ContactMatrixTest.java b/src/jalview/datamodel/SeqDistanceContactMatrix.java
similarity index 91%
rename from src/jalview/datamodel/ContactMatrixTest.java
rename to src/jalview/datamodel/SeqDistanceContactMatrix.java
index 24d95d8..ee7de5e 100644
--- a/src/jalview/datamodel/ContactMatrixTest.java
+++ b/src/jalview/datamodel/SeqDistanceContactMatrix.java
@@ -8,11 +8,11 @@ import java.awt.Color;
  * @author jprocter
  *
  */
-public class ContactMatrixTest implements ContactMatrixI
+public class SeqDistanceContactMatrix implements ContactMatrixI
 {
   private int width = 0;
 
-  public ContactMatrixTest(int width)
+  public SeqDistanceContactMatrix(int width)
   {
     this.width = width;
   }
diff --git a/src/jalview/io/AppletFormatAdapter.java b/src/jalview/io/AppletFormatAdapter.java
index 93ff448..4c9324c 100755
--- a/src/jalview/io/AppletFormatAdapter.java
+++ b/src/jalview/io/AppletFormatAdapter.java
@@ -26,7 +26,7 @@ import jalview.datamodel.Alignment;
 import jalview.datamodel.AlignmentAnnotation;
 import jalview.datamodel.AlignmentI;
 import jalview.datamodel.AlignmentView;
-import jalview.datamodel.ContactMatrixTest;
+import jalview.datamodel.SeqDistanceContactMatrix;
 import jalview.datamodel.PDBEntry.Type;
 import jalview.datamodel.SequenceI;
 import jalview.ext.jmol.JmolParser;
@@ -309,7 +309,7 @@ public class AppletFormatAdapter
 
     alignFile.addGroups(al);
 
-    al.addContactList(new ContactMatrixTest(al.getWidth()));
+    al.addContactList(new SeqDistanceContactMatrix(al.getWidth()));
 
     return al;
   }