1.1 compatible

diff --git a/src/jalview/analysis/AlignmentSorter.java b/src/jalview/analysis/AlignmentSorter.java
index c80c326..bf18b70 100755 (executable)
--- a/src/jalview/analysis/AlignmentSorter.java
+++ b/src/jalview/analysis/AlignmentSorter.java
@@ -121,7 +121,7 @@ public class AlignmentSorter
             tmp.addElement(seqs[i]);\r
         }\r
 \r
-        algn.clear();\r
+        algn.removeAllElements();\r
         //User may have hidden seqs, then clicked undo or redo\r
         for (int i = 0; i < tmp.size(); i++)\r
         {\r