X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FJalview2XML.java;h=f8dd2fe3ffac6a3cd8f91bbea1193f3b8ea2662c;hb=838e4f91d4a53dd315640dbc9ff6ef7a815ee576;hp=0319e6028d0324b917b5818c5a0a442b3db7605b;hpb=1e085f14ae2f19adfac0153c437ee891f0ad07bc;p=jalview.git

diff --git a/src/jalview/gui/Jalview2XML.java b/src/jalview/gui/Jalview2XML.java
index 0319e60..f8dd2fe 100644
--- a/src/jalview/gui/Jalview2XML.java
+++ b/src/jalview/gui/Jalview2XML.java
@@ -1,5 +1,5 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9)
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9.0b1)
  * Copyright (C) 2015 The Jalview Authors
  * 
  * This file is part of Jalview.
@@ -1092,15 +1092,26 @@ public class Jalview2XML
       view.setViewName(av.viewName);
       view.setGatheredViews(av.isGatherViewsHere());
 
-      Rectangle position = ap.av.getExplodedGeometry();
-      if (position == null)
+      Rectangle size = ap.av.getExplodedGeometry();
+      Rectangle position = size;
+      if (size == null)
       {
-        position = ap.alignFrame.getBounds();
+        size = ap.alignFrame.getBounds();
+        if (av.getCodingComplement() != null)
+        {
+          position = ((SplitFrame) ap.alignFrame.getSplitViewContainer())
+                  .getBounds();
+        }
+        else
+        {
+          position = size;
+        }
       }
       view.setXpos(position.x);
       view.setYpos(position.y);
-      view.setWidth(position.width);
-      view.setHeight(position.height);
+
+      view.setWidth(size.width);
+      view.setHeight(size.height);
 
       view.setStartRes(av.startRes);
       view.setStartSeq(av.startSeq);
@@ -2453,6 +2464,11 @@ public class Jalview2XML
     int width = (int) dnaFrame.getBounds().getWidth();
     int height = (int) (dnaFrame.getBounds().getHeight()
             + proteinFrame.getBounds().getHeight() + 50);
+
+    /*
+     * SplitFrame location is saved to both enclosed frames
+     */
+    splitFrame.setLocation(dnaFrame.getX(), dnaFrame.getY());
     Desktop.addInternalFrame(splitFrame, title, width, height);
 
     /*