X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fanalysis%2FAverageDistanceEngine.java;h=f4d69d5cb4b3e592df21768a2ada643d983ce886;hb=982963f55ceecf1c0591656b79dba5ad3aba0b06;hp=c52c7be3675b8adeb0e0cded0a57f9da43afe049;hpb=9e40070f757fc662aba39ba6314be4937276ead4;p=jalview.git

diff --git a/src/jalview/analysis/AverageDistanceEngine.java b/src/jalview/analysis/AverageDistanceEngine.java
index c52c7be..f4d69d5 100644
--- a/src/jalview/analysis/AverageDistanceEngine.java
+++ b/src/jalview/analysis/AverageDistanceEngine.java
@@ -100,12 +100,15 @@ public class AverageDistanceEngine extends TreeEngine
 
       // compute distance matrix element
       ContactListI ith = cm.getContactList(i);
-
+      distances.setValue(i, i, 0);
+      if (ith==null)
+      {
+        continue;
+      }
       for (int j = 0; j < i; j++)
       {
-        distances.setValue(i, i, 0);
         ContactListI jth = cm.getContactList(j);
-        if (jth==null)
+        if (jth == null)
         {
           break;
         }