Null sequence check

[jalview.git] / src / jalview / gui / PairwiseAlignPanel.java

diff --git a/src/jalview/gui/PairwiseAlignPanel.java b/src/jalview/gui/PairwiseAlignPanel.java
index 6509063..31efd84 100755 (executable)
--- a/src/jalview/gui/PairwiseAlignPanel.java
+++ b/src/jalview/gui/PairwiseAlignPanel.java
@@ -77,7 +77,7 @@ public class PairwiseAlignPanel extends GPairwiseAlignPanel
                         (SequenceI) selsubset.elementAt(j), "pep");\r
                 as.calcScoreMatrix();\r
                 as.traceAlignment();\r
-                as.printAlignment();\r
+                as.printAlignment(System.out);\r
                 scores[i][j] = (float) as.getMaxScore() / (float) as.getASeq1().length;\r
                 totscore = totscore + scores[i][j];\r
 \r