JAL-3081 refactored AnnotationSorter constructor and sort parameters

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

diff --git a/src/jalview/gui/AlignmentPanel.java b/src/jalview/gui/AlignmentPanel.java
index b27d66d..294facc 100644 (file)
--- a/src/jalview/gui/AlignmentPanel.java
+++ b/src/jalview/gui/AlignmentPanel.java
@@ -831,9 +831,8 @@ public class AlignmentPanel extends GAlignmentPanel implements
     SequenceAnnotationOrder sortBy = av.getSortAnnotationsBy();
     if (sortBy != SequenceAnnotationOrder.CUSTOM)
     {
-      final AnnotationSorter sorter = new AnnotationSorter(getAlignment(),
-              av.isShowAutocalculatedAbove(), autoCalcOnly);
-      sorter.sort(getAlignment().getAlignmentAnnotation(), sortBy);
+      final AnnotationSorter sorter = new AnnotationSorter(av);
+      sorter.sort(sortBy, autoCalcOnly);
     }
   }