Merge branch 'develop' into features/JAL-2446NCList

[jalview.git] / src / jalview / gui / FeatureRenderer.java

diff --git a/src/jalview/gui/FeatureRenderer.java b/src/jalview/gui/FeatureRenderer.java
index c6610e1..6f6bc02 100644 (file)
--- a/src/jalview/gui/FeatureRenderer.java
+++ b/src/jalview/gui/FeatureRenderer.java
@@ -271,7 +271,8 @@ public class FeatureRenderer extends
             highlight.addResult(sequences.get(0), sf.getBegin(),
                     sf.getEnd());
 
-            alignPanel.getSeqPanel().seqCanvas.highlightSearchResults(highlight);
+            alignPanel.getSeqPanel().seqCanvas.highlightSearchResults(
+                    highlight, false);
 
           }
           FeatureColourI col = getFeatureStyle(name.getText());
@@ -448,8 +449,8 @@ public class FeatureRenderer extends
          * (to ensure integrity of SequenceFeatures data store)
          */
         sequences.get(0).deleteFeature(sf);
-        SequenceFeature newSf = new SequenceFeature(sf, newBegin, newEnd,
-                enteredGroup);
+        SequenceFeature newSf = new SequenceFeature(sf, enteredType,
+                newBegin, newEnd, enteredGroup, sf.getScore());
         sf.setDescription(enteredDescription);
         ffile.parseDescriptionHTML(newSf, false);
         // amend features dialog only updates one sequence at a time
@@ -471,7 +472,7 @@ public class FeatureRenderer extends
           SequenceFeature sf = features.get(i);
           SequenceFeature sf2 = new SequenceFeature(enteredType,
                   enteredDescription, sf.getBegin(), sf.getEnd(),
-                  Float.NaN, enteredGroup);
+                  enteredGroup);
           ffile.parseDescriptionHTML(sf2, false);
           sequences.get(i).addSequenceFeature(sf2);
         }