X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=forester%2Fjava%2Fsrc%2Forg%2Fforester%2Fevoinference%2FTestPhylogenyReconstruction.java;h=a9c16e9ffa657969d185678cc0a159ef81a07fa9;hb=09a8c723e9ab220999f25c6be635282f18186be7;hp=f1074f46eace55afdeb62bccd00ba8549ffa7866;hpb=df65b1c6181c0474f10763a1d5e6a2e9ab723b87;p=jalview.git

diff --git a/forester/java/src/org/forester/evoinference/TestPhylogenyReconstruction.java b/forester/java/src/org/forester/evoinference/TestPhylogenyReconstruction.java
index f1074f4..a9c16e9 100644
--- a/forester/java/src/org/forester/evoinference/TestPhylogenyReconstruction.java
+++ b/forester/java/src/org/forester/evoinference/TestPhylogenyReconstruction.java
@@ -437,9 +437,9 @@ public class TestPhylogenyReconstruction {
 
     private static boolean testDistanceCalculationMethods( final File test_dir ) {
         try {
-            final Msa msa0 = GeneralMsaParser.parse( new FileInputStream( test_dir + ForesterUtil.FILE_SEPARATOR
+            final Msa msa0 = GeneralMsaParser.parseMsa( new FileInputStream( test_dir + ForesterUtil.FILE_SEPARATOR
                     + "bcl.aln" ) );
-            final BasicSymmetricalDistanceMatrix pwd0 = PairwiseDistanceCalculator.calcKimuraDistances( msa0 );
+            final DistanceMatrix pwd0 = PairwiseDistanceCalculator.calcKimuraDistances( msa0 );
             if ( pwd0.getSize() != 120 ) {
                 return false;
             }