Highlight from alignment

[jalview.git] / src / jalview / gui / Jalview2XML.java

diff --git a/src/jalview/gui/Jalview2XML.java b/src/jalview/gui/Jalview2XML.java
index 9ab6419..28840e7 100755 (executable)
--- a/src/jalview/gui/Jalview2XML.java
+++ b/src/jalview/gui/Jalview2XML.java
@@ -27,6 +27,7 @@ import java.io.*;
 import java.net.*;\r
 \r
 import java.util.*;\r
+\r
 import java.util.jar.*;\r
 \r
 import javax.swing.*;\r
@@ -393,7 +394,7 @@ public class Jalview2XML
         view.setShowBoxes(av.getShowBoxes());\r
         view.setShowColourText(av.getColourText());\r
         view.setShowConservation(av.showConservation);\r
-        view.setShowFullId(av.getShowFullId());\r
+        view.setShowFullId(av.getShowJVSuffix());\r
         view.setShowIdentity(av.showIdentity);\r
         view.setShowQuality(av.showQuality);\r
         view.setShowSequenceFeatures(av.showSequenceFeatures);\r
@@ -700,8 +701,8 @@ public class Jalview2XML
         af.viewport.setConservationSelected(view.getConservationSelected());\r
         af.conservationMenuItem.setSelected(view.getConservationSelected());\r
 \r
-        af.viewport.setShowFullId(view.getShowFullId());\r
-        af.fullSeqId.setSelected(view.getShowFullId());\r
+        af.viewport.setShowJVSuffix(view.getShowFullId());\r
+        af.seqLimits.setSelected(view.getShowFullId());\r
 \r
         af.viewport.setFont(new java.awt.Font(view.getFontName(),\r
                 view.getFontStyle(), view.getFontSize()));\r
@@ -762,6 +763,7 @@ public class Jalview2XML
 \r
         if (view.getShowSequenceFeatures())\r
         {\r
+            af.featureSettings.setEnabled(true);\r
             af.viewport.showSequenceFeatures = true;\r
             af.sequenceFeatures.setSelected(true);\r
             new SequenceFeatureFetcher(al, af.alignPanel);\r