X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FSeqCanvas.java;h=3af9fb939edc8b3476e5f144a6172f718437d824;hb=b61f2d9b571c4e4ab3285257c6ddbd39da61fa05;hp=13a0ec82e675bc7c832a35e81e9f10d74b19c9df;hpb=32a72d077d2371f4566688fbd103103d8505b27f;p=jalview.git

diff --git a/src/jalview/appletgui/SeqCanvas.java b/src/jalview/appletgui/SeqCanvas.java
index 13a0ec8..3af9fb9 100755
--- a/src/jalview/appletgui/SeqCanvas.java
+++ b/src/jalview/appletgui/SeqCanvas.java
@@ -584,6 +584,9 @@ public class SeqCanvas
         {
             nextSeq = av.alignment.getSequenceAt(i);
 
+            if(nextSeq==null)
+              continue;
+
             sr.drawSequence(nextSeq, av.alignment.findAllGroups(nextSeq),
                             startRes, endRes,
                             offset + ( (i - startSeq) * av.charHeight));
@@ -668,12 +671,12 @@ public class SeqCanvas
            }
 
            if ( (sx <= (endRes - startRes) * av.charWidth) &&
-               group.getSequences(false).
+               group.getSequences(null).
                contains(av.alignment.getSequenceAt(i)))
            {
              if ( (bottom == -1) &&
              (i >= alHeight ||
-                 !group.getSequences(false).contains(
+                 !group.getSequences(null).contains(
                      av.alignment.getSequenceAt(i + 1))))
              {
                bottom = sy + av.charHeight;
@@ -682,7 +685,7 @@ public class SeqCanvas
              if (!inGroup)
              {
                if ( ( (top == -1) && (i == 0)) ||
-                   !group.getSequences(false).contains(
+                   !group.getSequences(null).contains(
                        av.alignment.getSequenceAt(i - 1)))
                {
                  top = sy;