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

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

diff --git a/src/jalview/gui/IdPanel.java b/src/jalview/gui/IdPanel.java
index 11ef52a..9d1cae4 100755 (executable)
--- a/src/jalview/gui/IdPanel.java
+++ b/src/jalview/gui/IdPanel.java
@@ -85,9 +85,9 @@ public class IdPanel extends JPanel implements MouseListener,
     SeqPanel sp = alignPanel.seqPanel;
     int seq = Math.max(0, sp.findSeq(e));
     String tmp;
-    if (seq > -1 && seq < av.alignment.getHeight())
+    if (seq > -1 && seq < av.getAlignment().getHeight())
     {
-      SequenceI sequence = av.alignment.getSequenceAt(seq);
+      SequenceI sequence = av.getAlignment().getSequenceAt(seq);
       StringBuffer tip = new StringBuffer();
       tip.append("<i>");
 
@@ -287,7 +287,7 @@ public class IdPanel extends JPanel implements MouseListener,
     }
 
     if (mouseDragging && (e.getY() >= getHeight())
-            && (av.alignment.getHeight() > av.getEndSeq()))
+            && (av.getAlignment().getHeight() > av.getEndSeq()))
     {
       scrollThread = new ScrollThread(false);
     }
@@ -342,7 +342,7 @@ public class IdPanel extends JPanel implements MouseListener,
     {
       av.setSelectionGroup(new SequenceGroup());
       av.getSelectionGroup().setStartRes(0);
-      av.getSelectionGroup().setEndRes(av.alignment.getWidth() - 1);
+      av.getSelectionGroup().setEndRes(av.getAlignment().getWidth() - 1);
     }
 
     if (e.isShiftDown() && (lastid != -1))
@@ -441,7 +441,7 @@ public class IdPanel extends JPanel implements MouseListener,
       return;
     }
 
-    int index = av.alignment.findIndex((SequenceI) found.get(0));
+    int index = av.getAlignment().findIndex((SequenceI) found.get(0));
 
     // do we need to scroll the panel?
     if ((av.getStartSeq() > index) || (av.getEndSeq() < index))