JAL-2491 Missed port to applet from JAL-1691

[jalview.git] / src / jalview / appletgui / AlignmentPanel.java

diff --git a/src/jalview/appletgui/AlignmentPanel.java b/src/jalview/appletgui/AlignmentPanel.java
index 9753453..e402b9b 100644 (file)
--- a/src/jalview/appletgui/AlignmentPanel.java
+++ b/src/jalview/appletgui/AlignmentPanel.java
@@ -407,7 +407,8 @@ public class AlignmentPanel extends Panel implements AdjustmentListener,
       {
         int offset = (vpRanges.getEndRes() - vpRanges.getStartRes() + 1) / 2 - 1;
         start = Math.max(start - offset, 0);
-        end = Math.min(end + offset, seq.getEnd() - 1);
+        end = end + offset - 1;
+        // end = Math.min(end + offset, seq.getEnd() - 1);
       }
 
       if (start < 0)
@@ -436,11 +437,12 @@ public class AlignmentPanel extends Panel implements AdjustmentListener,
     int start = -1;
     if (av.hasHiddenColumns())
     {
-      start = av.getColumnSelection().findColumnPosition(ostart);
-      end = av.getColumnSelection().findColumnPosition(end);
+      AlignmentI al = av.getAlignment();
+      start = al.getHiddenColumns().findColumnPosition(ostart);
+      end = al.getHiddenColumns().findColumnPosition(end);
       if (start == end)
       {
-        if (!scrollToNearest && !av.getColumnSelection().isVisible(ostart))
+        if (!scrollToNearest && !al.getHiddenColumns().isVisible(ostart))
         {
           // don't scroll - position isn't visible
           return false;
@@ -689,7 +691,8 @@ public class AlignmentPanel extends Panel implements AdjustmentListener,
 
       if (av.hasHiddenColumns())
       {
-        width = av.getColumnSelection().findColumnPosition(width);
+        width = av.getAlignment().getHiddenColumns()
+                .findColumnPosition(width);
       }
       if (x < 0)
       {
@@ -990,7 +993,8 @@ public class AlignmentPanel extends Panel implements AdjustmentListener,
     int maxwidth = av.getAlignment().getWidth();
     if (av.hasHiddenColumns())
     {
-      maxwidth = av.getColumnSelection().findColumnPosition(maxwidth) - 1;
+      maxwidth = av.getAlignment().getHiddenColumns()
+              .findColumnPosition(maxwidth) - 1;
     }
 
     // get the width of the canvas in residues