(JAL-969) refactored alignmentViewport base class to own package and pulled up most...

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

diff --git a/src/jalview/gui/SequenceFetcher.java b/src/jalview/gui/SequenceFetcher.java
index 3fa00f5..d596183 100755 (executable)
--- a/src/jalview/gui/SequenceFetcher.java
+++ b/src/jalview/gui/SequenceFetcher.java
@@ -802,16 +802,16 @@ public class SequenceFetcher extends JPanel implements Runnable
       {
         for (int i = 0; i < al.getHeight(); i++)
         {
-          alignFrame.viewport.alignment.addSequence(al.getSequenceAt(i)); // this
+          alignFrame.viewport.getAlignment().addSequence(al.getSequenceAt(i)); // this
           // also
           // creates
           // dataset
           // sequence
           // entries
         }
-        alignFrame.viewport.setEndSeq(alignFrame.viewport.alignment
+        alignFrame.viewport.setEndSeq(alignFrame.viewport.getAlignment()
                 .getHeight());
-        alignFrame.viewport.alignment.getWidth();
+        alignFrame.viewport.getAlignment().getWidth();
         alignFrame.viewport.firePropertyChange("alignment", null,
                 alignFrame.viewport.getAlignment().getSequences());
       }