X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FJalview2XML_V1.java;h=5cbf228a46b0a6e2a69173e056ae06772831b88b;hb=f37c3fd4fe12799de498de5f397252e9f457fee9;hp=e94ee0ee6a1f087164b101fb081877e67cf9305d;hpb=3d0101179759ef157b088ea135423cd909512d9f;p=jalview.git

diff --git a/src/jalview/gui/Jalview2XML_V1.java b/src/jalview/gui/Jalview2XML_V1.java
index e94ee0e..5cbf228 100755
--- a/src/jalview/gui/Jalview2XML_V1.java
+++ b/src/jalview/gui/Jalview2XML_V1.java
@@ -36,6 +36,7 @@ import jalview.binding.Tree;
 import jalview.binding.UserColours;
 import jalview.binding.Viewport;
 import jalview.datamodel.PDBEntry;
+import jalview.datamodel.SequenceFeature;
 import jalview.io.FileFormat;
 import jalview.schemes.ColourSchemeI;
 import jalview.schemes.ColourSchemeProperty;
@@ -226,11 +227,10 @@ public class Jalview2XML_V1
         Features[] features = JSEQ[i].getFeatures();
         for (int f = 0; f < features.length; f++)
         {
-          jalview.datamodel.SequenceFeature sf = new jalview.datamodel.SequenceFeature(
-                  features[f].getType(), features[f].getDescription(),
-                  features[f].getStatus(), features[f].getBegin(),
+          SequenceFeature sf = new SequenceFeature(features[f].getType(),
+                  features[f].getDescription(), features[f].getBegin(),
                   features[f].getEnd(), null);
-
+          sf.setStatus(features[f].getStatus());
           al.getSequenceAt(i).getDatasetSequence().addSequenceFeature(sf);
         }
       }
@@ -413,7 +413,7 @@ public class Jalview2XML_V1
     af.viewport.getResidueShading().setThreshold(view.getPidThreshold(),
             true);
     af.viewport.getResidueShading()
-            .setConsensus(af.viewport.getSequenceConsensusHash());
+            .setConsensus(af.viewport.getConsensusProfiles());
     af.viewport.setColourAppliesToAllGroups(false);
     af.alignPanel.updateLayout();
     af.changeColour(cs);