X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FSeqCanvas.java;fp=src%2Fjalview%2Fgui%2FSeqCanvas.java;h=c05c1721d45ef1b1ac6a0c176e59baa6edac056b;hb=d065bc916cb63af83cdab7319f5177a855724aba;hp=ed3d2988a239ae11600c78f0e87069c0bc72c845;hpb=d346ed81a91c4fbed1836379bb794ed908cd9a11;p=jalview.git

diff --git a/src/jalview/gui/SeqCanvas.java b/src/jalview/gui/SeqCanvas.java
index ed3d298..c05c172 100755
--- a/src/jalview/gui/SeqCanvas.java
+++ b/src/jalview/gui/SeqCanvas.java
@@ -555,9 +555,10 @@ public class SeqCanvas extends JComponent implements ViewportListenerI
         g.setColor(Color.blue);
         int res;
         HiddenColumns hidden = av.getAlignment().getHiddenColumns();
-        for (int i = 0; i < hidden.getHiddenRegions().size(); i++)
+        List<Integer> positions = hidden.findHiddenRegionPositions();
+        for (int pos : positions)
         {
-          res = hidden.findHiddenRegionPosition(i) - startRes;
+          res = pos - startRes;
 
           if (res < 0 || res > endx - startRes)
           {
@@ -656,15 +657,13 @@ public class SeqCanvas extends JComponent implements ViewportListenerI
     }
     else
     {
-      List<int[]> regions = av.getAlignment().getHiddenColumns()
-              .getHiddenRegions();
-
       int screenY = 0;
       final int screenYMax = endRes - startRes;
       int blockStart = startRes;
       int blockEnd = endRes;
 
-      for (int[] region : regions)
+      for (int[] region : av.getAlignment().getHiddenColumns()
+              .getHiddenColumnsCopy())
       {
         int hideStart = region[0];
         int hideEnd = region[1];