X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FFinder.java;h=2579d91be3600a4af25d184ebe128b07a95afc7f;hb=10eedfb43dacd4cf32d4b5fe27d8d5987c70eaf8;hp=d18295cf334e061fca98c2ee4c203cbf70085637;hpb=29c4cd117483f6bbeaab21a24c4a5811b7fcf915;p=jalview.git

diff --git a/src/jalview/appletgui/Finder.java b/src/jalview/appletgui/Finder.java
index d18295c..2579d91 100644
--- a/src/jalview/appletgui/Finder.java
+++ b/src/jalview/appletgui/Finder.java
@@ -20,6 +20,7 @@
  */
 package jalview.appletgui;
 
+import jalview.datamodel.SearchResultMatchI;
 import jalview.datamodel.SearchResultsI;
 import jalview.datamodel.SequenceFeature;
 import jalview.datamodel.SequenceI;
@@ -115,18 +116,21 @@ public class Finder extends Panel implements ActionListener
     SequenceI[] seqs = new SequenceI[searchResults.getSize()];
     SequenceFeature[] features = new SequenceFeature[searchResults
             .getSize()];
+    String searchString = textfield.getText().trim();
 
-    for (int i = 0; i < searchResults.getSize(); i++)
+    int i = 0;
+    for (SearchResultMatchI match : searchResults.getResults())
     {
-      seqs[i] = searchResults.getResultSequence(i);
+      seqs[i] = match.getSequence().getDatasetSequence();
 
-      features[i] = new SequenceFeature(textfield.getText().trim(),
-              "Search Results", null, searchResults.getResultStart(i),
-              searchResults.getResultEnd(i), "Search Results");
+      features[i] = new SequenceFeature(searchString,
+              "Search Results", null, match.getStart(), match.getEnd(),
+              "Search Results");
+      i++;
     }
 
     if (ap.seqPanel.seqCanvas.getFeatureRenderer().amendFeatures(seqs,
-            features, true, ap))
+            features, true, ap, searchString))
     {
       ap.alignFrame.sequenceFeatures.setState(true);
       av.setShowSequenceFeatures(true);