JAL-3370 sep ignored in getAlignmentOrderFrom(AlignFrameI alf, String

[jalview.git] / src / jalview / bin / JalviewAppLoader.java

diff --git a/src/jalview/bin/JalviewAppLoader.java b/src/jalview/bin/JalviewAppLoader.java
index 0d911c0..921ccdf 100644 (file)
--- a/src/jalview/bin/JalviewAppLoader.java
+++ b/src/jalview/bin/JalviewAppLoader.java
@@ -1228,7 +1228,7 @@ public class JalviewAppLoader
     {
       order[i] = alorder.getSequenceAt(i).getName();
     }
-    return arrayToSeparatorList(order);
+    return arrayToSeparatorList(order, sep);
   }
 
   public String getSelectedSequencesAsAlignmentFrom(AlignFrameI alf,