X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fdatamodel%2FSearchResults.java;h=880f9705f8d8624faf19d8fb44fe40fa6a3c6e63;hb=d34b7142d47cab72ca9e0822b4407f3f497f191a;hp=6b067c8d319c4af5d4901e0bf759a94cbd6387d2;hpb=bf7c5d6a690420087d2925c018bb01595c9ccb89;p=jalview.git

diff --git a/src/jalview/datamodel/SearchResults.java b/src/jalview/datamodel/SearchResults.java
index 6b067c8..880f970 100755
--- a/src/jalview/datamodel/SearchResults.java
+++ b/src/jalview/datamodel/SearchResults.java
@@ -33,6 +33,7 @@ import java.util.List;
  */
 public class SearchResults implements SearchResultsI
 {
+  private int count;
 
   private List<SearchResultMatchI> matches = new ArrayList<>();
 
@@ -168,11 +169,30 @@ public class SearchResults implements SearchResultsI
     if (!matches.contains(m))
     {
       matches.add(m);
+      count++;
     }
     return m;
   }
 
   @Override
+  public void addResult(SequenceI seq, int[] positions)
+  {
+    /*
+     * we only increment the match count by 1 - or not at all,
+     * if the matches are all duplicates of existing
+     */
+    int beforeCount = count;
+    for (int i = 0; i < positions.length - 1; i += 2)
+    {
+      addResult(seq, positions[i], positions[i + 1]);
+    }
+    if (count > beforeCount)
+    {
+      count = beforeCount + 1;
+    }
+  }
+
+  @Override
   public boolean involvesSequence(SequenceI sequence)
   {
     final int start = sequence.getStart();
@@ -214,8 +234,8 @@ public class SearchResults implements SearchResultsI
       {
         mfound = true;
         matchStart = sequence.findIndex(m.start) - 1;
-        matchEnd = m.start == m.end ? matchStart : sequence
-                .findIndex(m.end) - 1;
+        matchEnd = m.start == m.end ? matchStart
+                : sequence.findIndex(m.end) - 1;
       }
 
       if (mfound)
@@ -286,9 +306,9 @@ public class SearchResults implements SearchResultsI
   }
 
   @Override
-  public int getSize()
+  public int getCount()
   {
-    return matches.size();
+    return count;
   }
 
   @Override