sequence is char []

[jalview.git] / src / jalview / analysis / SeqsetUtils.java

diff --git a/src/jalview/analysis/SeqsetUtils.java b/src/jalview/analysis/SeqsetUtils.java
index 885305a..00fbad5 100755 (executable)
--- a/src/jalview/analysis/SeqsetUtils.java
+++ b/src/jalview/analysis/SeqsetUtils.java
@@ -204,7 +204,10 @@ public class SeqsetUtils
       boolean ungapped[] = new boolean[sequences.length];
       int msflen=0;
       for (int i=0,j=sequences.length; i<j;i++) {
-        String tempseq = jalview.analysis.AlignSeq.extractGaps(jalview.util.Comparison.GapChars, sequences[i].getSequence());
+        String tempseq = jalview.analysis.AlignSeq.extractGaps(
+            jalview.util.Comparison.GapChars,
+            sequences[i].getSequenceAsString());
+
         if (tempseq.length()==0)
           ungapped[i]=false;
         else {