JAL-2050 make SequenceFeature.score final, adjust constructor calls

[jalview.git] / src / jalview / io / FeaturesFile.java

diff --git a/src/jalview/io/FeaturesFile.java b/src/jalview/io/FeaturesFile.java
index a3cab6b..e1fccaf 100755 (executable)
--- a/src/jalview/io/FeaturesFile.java
+++ b/src/jalview/io/FeaturesFile.java
@@ -373,20 +373,23 @@ public class FeaturesFile extends AlignFile implements FeaturesSourceI
       Color colour = ColorUtils.createColourFromName(ft);
       featureColours.put(ft, new FeatureColour(colour));
     }
-    SequenceFeature sf = new SequenceFeature(ft, desc, "", startPos,
-            endPos, featureGroup);
+    SequenceFeature sf = null;
     if (gffColumns.length > 6)
     {
       float score = Float.NaN;
       try
       {
         score = new Float(gffColumns[6]).floatValue();
-        // update colourgradient bounds if allowed to
       } catch (NumberFormatException ex)
       {
-        // leave as NaN
+        sf = new SequenceFeature(ft, desc, startPos, endPos, featureGroup);
       }
-      sf.setScore(score);
+      sf = new SequenceFeature(ft, desc, startPos, endPos, score,
+              featureGroup);
+    }
+    else
+    {
+      sf = new SequenceFeature(ft, desc, startPos, endPos, featureGroup);
     }
 
     parseDescriptionHTML(sf, removeHTML);