X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FFinder.java;h=e0ceeef67f4039a5644cf334096025ac37f00343;hb=621a628afc1f6ee7a2778b9d0ae2729b88fe5bfd;hp=49a9656e37a6cb0fc34364a42d660f304b77647f;hpb=e5ed660a1ee016f2a7a80f52b92a6d52ec7b47a7;p=jalview.git

diff --git a/src/jalview/gui/Finder.java b/src/jalview/gui/Finder.java
index 49a9656..e0ceeef 100755
--- a/src/jalview/gui/Finder.java
+++ b/src/jalview/gui/Finder.java
@@ -173,7 +173,7 @@ public class Finder extends GFinder
         {
             int res = Integer.parseInt(searchString);
             found = true;
-            if (av.getSelectionGroup() == null || av.getSelectionGroup().getSize() < 1)
+            if (av.getSelectionGroup() == null || av.getSelectionGroup().getSize(false) < 1)
             {
               seq = (Sequence) av.getAlignment().getSequenceAt(0);
             }
@@ -196,7 +196,7 @@ public class Finder extends GFinder
 
         if (selection != null)
         {
-            if ((selection.getSize() < 1) ||
+            if ((selection.getSize(false) < 1) ||
                     ((selection.getEndRes() - selection.getStartRes()) < 2))
             {
                 selection = null;
@@ -207,7 +207,7 @@ public class Finder extends GFinder
         {
             seq = (Sequence) av.alignment.getSequenceAt(seqIndex);
 
-            if ((selection != null) && !selection.sequences.contains(seq))
+            if ((selection != null) && !selection.getSequences(false).contains(seq))
             {
                 seqIndex++;
                 resIndex = 0;