propagated use of jalview.util.GapChars for gap removal.

diff --git a/src/jalview/ws/MsaWSClient.java b/src/jalview/ws/MsaWSClient.java
index 2141f6f..36c3823 100755 (executable)
--- a/src/jalview/ws/MsaWSClient.java
+++ b/src/jalview/ws/MsaWSClient.java
@@ -109,7 +109,7 @@ public class MsaWSClient
         seqarray[i] = new vamsas.objects.simple.Sequence();
         seqarray[i].setId(newname);
         seqarray[i].setSeq((submitGaps) ? msa[i].getSequence()
-                           : AlignSeq.extractGaps("-. ", msa[i].getSequence()));
+                           : AlignSeq.extractGaps(jalview.util.Comparison.GapChars, msa[i].getSequence()));
       }
 
       this.seqs = new vamsas.objects.simple.SequenceSet();