JAL-3130 incorporating feature/JAL-3063jaxbNoCastor and new script utils/jdeps_jlink_...

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

diff --git a/src/jalview/io/VamsasAppDatastore.java b/src/jalview/io/VamsasAppDatastore.java
index d81a6b0..adf4447 100644 (file)
--- a/src/jalview/io/VamsasAppDatastore.java
+++ b/src/jalview/io/VamsasAppDatastore.java
@@ -33,6 +33,7 @@ import jalview.io.vamsas.Datasetsequence;
 import jalview.io.vamsas.DatastoreItem;
 import jalview.io.vamsas.DatastoreRegistry;
 import jalview.io.vamsas.Rangetype;
+import jalview.project.Jalview2XML;
 import jalview.util.MessageManager;
 import jalview.viewmodel.AlignmentViewport;
 
@@ -1311,7 +1312,8 @@ public class VamsasAppDatastore
           // client data is shared over all app clients
           try
           {
-            jalview.gui.Jalview2XML fromxml = new jalview.gui.Jalview2XML();
+            // jalview.gui.Jalview2XML fromxml = new jalview.gui.Jalview2XML();
+            Jalview2XML fromxml = new Jalview2XML();
             fromxml.attemptversion1parse = false;
             fromxml.setUniqueSetSuffix("");
             fromxml.setObjectMappingTables(vobj2jv, jv2vobj); // mapKeysToString
@@ -1360,7 +1362,7 @@ public class VamsasAppDatastore
         // user data overrides data shared over all app clients ?
         try
         {
-          jalview.gui.Jalview2XML fromxml = new jalview.gui.Jalview2XML();
+          Jalview2XML fromxml = new Jalview2XML();
           fromxml.attemptversion1parse = false;
           fromxml.setUniqueSetSuffix("");
           fromxml.setSkipList(skipList);
@@ -1531,7 +1533,7 @@ public class VamsasAppDatastore
     {
       try
       {
-        jalview.gui.Jalview2XML jxml = new jalview.gui.Jalview2XML();
+        Jalview2XML jxml = new Jalview2XML();
         jxml.setObjectMappingTables(mapKeysToString(vobj2jv),
                 mapValuesToString(jv2vobj));
         jxml.setSkipList(skipList);