right align ids

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

diff --git a/src/jalview/gui/AlignFrame.java b/src/jalview/gui/AlignFrame.java
index 46bbc1b..18ebf0e 100755 (executable)
--- a/src/jalview/gui/AlignFrame.java
+++ b/src/jalview/gui/AlignFrame.java
@@ -374,6 +374,8 @@ public class AlignFrame extends GAlignFrame implements DropTargetListener
 
     alignPanels.addElement(ap);
 
+    PaintRefresher.Register(ap, ap.av.getSequenceSetId());
+
     int aSize = alignPanels.size();
 
     tabbedPane.setVisible(aSize>1 || ap.av.viewName!=null);
@@ -466,10 +468,12 @@ public class AlignFrame extends GAlignFrame implements DropTargetListener
    */
   void setMenusFromViewport(AlignViewport av)
   {
+    padGapsMenuitem.setSelected(av.padGaps);
     colourTextMenuItem.setSelected(av.showColourText);
     abovePIDThreshold.setSelected(av.getAbovePIDThreshold());
     conservationMenuItem.setSelected(av.getConservationSelected());
     seqLimits.setSelected(av.getShowJVSuffix());
+    idRightAlign.setSelected(av.idsAlignRight);
     renderGapsMenuItem.setSelected(av.renderGaps);
     wrapMenuItem.setSelected(av.wrapAlignment);
     annotationPanelMenuItem.setState(av.showAnnotation);
@@ -957,10 +961,10 @@ public class AlignFrame extends GAlignFrame implements DropTargetListener
     viewport.redoList.push(command);
     command.undoCommand();
 
+
     viewport.hasHiddenColumns = viewport.colSel.getHiddenColumns() != null;
     updateEditMenuBar();
-    viewport.firePropertyChange("alignment", null,
-                                viewport.getAlignment().getSequences());
+    viewport.firePropertyChange("alignment", null,null);
   }
 
   /**
@@ -976,7 +980,7 @@ public class AlignFrame extends GAlignFrame implements DropTargetListener
     viewport.hasHiddenColumns = viewport.colSel.getHiddenColumns()!=null;
 
     updateEditMenuBar();
-    viewport.firePropertyChange("alignment", null, viewport.getAlignment().getSequences());
+    viewport.firePropertyChange("alignment", null, null);
   }
 
 
@@ -1729,6 +1733,13 @@ public class AlignFrame extends GAlignFrame implements DropTargetListener
     alignPanel.repaint();
   }
 
+  public void idRightAlign_actionPerformed(ActionEvent e)
+  {
+    viewport.idsAlignRight = idRightAlign.isSelected();
+    alignPanel.repaint();
+  }
+
+
 
   /**
    * DOCUMENT ME!