applet gsdi

[jalview.git] / forester / java / src / org / forester / sdi / GSDIR.java

diff --git a/forester/java/src/org/forester/sdi/GSDIR.java b/forester/java/src/org/forester/sdi/GSDIR.java
index 8ada705..80a0d3a 100644 (file)
--- a/forester/java/src/org/forester/sdi/GSDIR.java
+++ b/forester/java/src/org/forester/sdi/GSDIR.java
@@ -77,13 +77,18 @@ public class GSDIR implements GSDII {
             gene_tree.reRoot( branch );\r
             PhylogenyMethods.preOrderReId( species_tree );\r
             //TEST, remove later\r
-            //            for( final PhylogenyNodeIterator it = _gene_tree.iteratorPostorder(); it.hasNext(); ) {\r
+            //            for( final PhylogenyNodeIterator it = gene_tree.iteratorPostorder(); it.hasNext(); ) {\r
             //                final PhylogenyNode g = it.next();\r
             //                if ( g.isInternal() ) {\r
             //                    g.setLink( null );\r
             //                }\r
             //            }\r
-            final GSDIsummaryResult gsdi_result = GSDI.geneTreePostOrderTraversal( gene_tree, true );\r
+            final GSDIsummaryResult gsdi_result = GSDI.geneTreePostOrderTraversal( gene_tree,\r
+                                                                                   true,\r
+                                                                                   min_duplications_sum );\r
+            if ( gsdi_result == null ) {\r
+                continue;\r
+            }\r
             if ( gsdi_result.getDuplicationsSum() < min_duplications_sum ) {\r
                 min_duplications_sum = gsdi_result.getDuplicationsSum();\r
                 speciations_sum = gsdi_result.getSpeciationsSum();\r