JAL-2416 revert to '*' not '-' in score matrix, handle gaps explicitly

[jalview.git] / src / jalview / analysis / AverageDistanceTree.java

diff --git a/src/jalview/analysis/AverageDistanceTree.java b/src/jalview/analysis/AverageDistanceTree.java
index 7e3cfe1..5b0e20a 100644 (file)
--- a/src/jalview/analysis/AverageDistanceTree.java
+++ b/src/jalview/analysis/AverageDistanceTree.java
@@ -55,9 +55,6 @@ public class AverageDistanceTree extends TreeBuilder
     {
       distances.setValue(i, ii, newdist[ii]);
       distances.setValue(ii, i, newdist[ii]);
-      System.out.println(String.format(
-              "findClusterDistance(%d, %d) newdist to %d is %f", i, j, ii,
-              newdist[ii]));
     }
   }
 
@@ -88,8 +85,6 @@ public class AverageDistanceTree extends TreeBuilder
         }
       }
     }
-    System.out.println("findMinDistance found " + min + " at " + mini + ","
-            + minj);
     return min;
   }
 
@@ -127,8 +122,6 @@ public class AverageDistanceTree extends TreeBuilder
 
     tmpi.dist = ((dist / 2) - ih);
     tmpj.dist = ((dist / 2) - jh);
-    System.out.println("findNewDistances set tmpi to " + tmpi.dist
-            + ", tmpj to " + tmpj.dist);
   }
 
 }