work on data buffer for aLeaves MAFFT suite + clean up

[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 34efda2..dc3fcae 100644 (file)
--- a/forester/java/src/org/forester/sdi/GSDIR.java
+++ b/forester/java/src/org/forester/sdi/GSDIR.java
@@ -54,7 +54,6 @@ public class GSDIR extends GSDI {
             _duplications_sum = 0;\r
             _speciation_or_duplication_events_sum = 0;\r
             _speciations_sum = 0;\r
-          \r
             _gene_tree.reRoot( root.getId() ); //TODO reRoot( root )\r
             PhylogenyMethods.preOrderReId( getSpeciesTree() );\r
             //TEST, remove later\r
@@ -65,23 +64,19 @@ public class GSDIR extends GSDI {
                 }\r
             }\r
             geneTreePostOrderTraversal();\r
-           \r
-            if (  _duplications_sum < _min_duplications_sum ) {\r
+            if ( _duplications_sum < _min_duplications_sum ) {\r
                 _min_duplications_sum = _duplications_sum;\r
                 _min_duplications_sum_gene_trees.clear();\r
                 _min_duplications_sum_gene_trees.add( getGeneTree().copy() );\r
             }\r
-            else if (  _duplications_sum == _min_duplications_sum ) {\r
+            else if ( _duplications_sum == _min_duplications_sum ) {\r
                 _min_duplications_sum_gene_trees.add( getGeneTree().copy() );\r
             }\r
             System.out.println( getDuplicationsSum() );\r
-            _duplications_sum_stats.addValue(  _duplications_sum );\r
+            _duplications_sum_stats.addValue( _duplications_sum );\r
         }\r
     }\r
 \r
-   \r
-   \r
-\r
     public int getMinDuplicationsSum() {\r
         return _min_duplications_sum;\r
     }\r