X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FAlignmentPanel.java;h=b27d66d585bbddd3bdd4d0f1d2a6adfd6c834fc7;hb=53e0350c1c4464442938e4bace4e85bdbca665be;hp=aba1e3daf2ee53718a35c7805b3a60e3f2fd7e85;hpb=578886777f32414fbf954ba86328c9943a64bccb;p=jalview.git

diff --git a/src/jalview/gui/AlignmentPanel.java b/src/jalview/gui/AlignmentPanel.java
index aba1e3d..b27d66d 100644
--- a/src/jalview/gui/AlignmentPanel.java
+++ b/src/jalview/gui/AlignmentPanel.java
@@ -826,13 +826,13 @@ public class AlignmentPanel extends GAlignmentPanel implements
    * if currently set to 'Custom' (manual) ordering.
    */
   @Override
-  public void sortAnnotations()
+  public void sortAnnotations(boolean autoCalcOnly)
   {
     SequenceAnnotationOrder sortBy = av.getSortAnnotationsBy();
     if (sortBy != SequenceAnnotationOrder.CUSTOM)
     {
       final AnnotationSorter sorter = new AnnotationSorter(getAlignment(),
-              av.isShowAutocalculatedAbove());
+              av.isShowAutocalculatedAbove(), autoCalcOnly);
       sorter.sort(getAlignment().getAlignmentAnnotation(), sortBy);
     }
   }