JAL-969 use AlignViewportI interface instance where ever possible in method signatures

diff --git a/src/jalview/gui/Desktop.java b/src/jalview/gui/Desktop.java
index b9e796e..7852253 100644 (file)
--- a/src/jalview/gui/Desktop.java
+++ b/src/jalview/gui/Desktop.java
@@ -20,6 +20,7 @@
  */
 package jalview.gui;
 
+import jalview.api.AlignViewportI;
 import jalview.bin.Cache;
 import jalview.io.FileLoader;
 import jalview.io.FormatAdapter;
@@ -2526,20 +2527,21 @@ public class Desktop extends jalview.jbgui.GDesktop implements
   }
 
   /**
-   * This will return the first AlignFrame viewing AlignViewport av. It will
-   * break if there are more than one AlignFrames viewing a particular av.
+   * This will return the AlignFrame holding the given viewport instance. It
+   * will break if there are more than one AlignFrames viewing a particular av.
    * 
-   * @param av
-   * @return alignFrame for av
+   * @param viewport
+   * @return alignFrame for viewport
    */
-  public static AlignFrame getAlignFrameFor(AlignmentViewport av)
+  public static AlignFrame getAlignFrameFor(AlignViewportI viewport)
   {
     if (desktop != null)
     {
-      AlignmentPanel[] aps = getAlignmentPanels(av.getSequenceSetId());
+      AlignmentPanel[] aps = getAlignmentPanels(viewport
+              .getSequenceSetId());
       for (int panel = 0; aps != null && panel < aps.length; panel++)
       {
-        if (aps[panel] != null && aps[panel].av == av)
+        if (aps[panel] != null && aps[panel].av == viewport)
         {
           return aps[panel].alignFrame;
         }