X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=forester%2Fjava%2Fsrc%2Forg%2Fforester%2Fsdi%2FGSDIR.java;h=52620a2f041430acc6f3101ac5ab5c5c8263dd73;hb=41ea5973f93687513d29e5b7cad1abff8f3adb4b;hp=7ca8dca5e490411d96f5dddf454e310b4e8f8587;hpb=b819fa043cac2722618af63f0d4752ffa1a40890;p=jalview.git

diff --git a/forester/java/src/org/forester/sdi/GSDIR.java b/forester/java/src/org/forester/sdi/GSDIR.java
index 7ca8dca..52620a2 100644
--- a/forester/java/src/org/forester/sdi/GSDIR.java
+++ b/forester/java/src/org/forester/sdi/GSDIR.java
@@ -90,10 +90,10 @@ public class GSDIR implements GSDII {
             if ( gsdi_result.getDuplicationsSum() < min_duplications_sum ) {
                 min_duplications_sum = gsdi_result.getDuplicationsSum();
                 speciations_sum = gsdi_result.getSpeciationsSum();
+                _min_duplications_sum_gene_tree = gene_tree.copy();
                 if ( transfer_taxonomy ) {
-                    transferTaxonomy( gene_tree );
+                    transferTaxonomy( _min_duplications_sum_gene_tree );
                 }
-                _min_duplications_sum_gene_tree = gene_tree.copy();
             }
             else if ( gsdi_result.getDuplicationsSum() == min_duplications_sum ) {
                 final List<Phylogeny> l = new ArrayList<Phylogeny>();
@@ -101,10 +101,10 @@ public class GSDIR implements GSDII {
                 l.add( gene_tree );
                 final int index = getIndexesOfShortestTree( l ).get( 0 );
                 if ( index == 1 ) {
+                    _min_duplications_sum_gene_tree = gene_tree.copy();
                     if ( transfer_taxonomy ) {
-                        transferTaxonomy( gene_tree );
+                        transferTaxonomy( _min_duplications_sum_gene_tree );
                     }
-                    _min_duplications_sum_gene_tree = gene_tree.copy();
                 }
             }
             _duplications_sum_stats.addValue( gsdi_result.getDuplicationsSum() );