in progress...

[jalview.git] / forester / java / src / org / forester / clade_analysis / AnalysisSingle.java

diff --git a/forester/java/src/org/forester/clade_analysis/AnalysisSingle.java b/forester/java/src/org/forester/clade_analysis/AnalysisSingle.java
index 5c725b6..14863d4 100644 (file)
--- a/forester/java/src/org/forester/clade_analysis/AnalysisSingle.java
+++ b/forester/java/src/org/forester/clade_analysis/AnalysisSingle.java
@@ -87,12 +87,10 @@ public final class AnalysisSingle {
         }
         res.setLeastEncompassingCladeSize( lec_ext_nodes );
         res.setTreeSize( p_ext_nodes );
-       
         final String conf = obtainConfidence( qnode_pp );
         if ( conf != null ) {
-            res.setGreatestCommonCladeSubtreeConfidence(conf);
+            res.setGreatestCommonCladeSubtreeConfidence( conf );
         }
-        
         final String greatest_common_prefix_up[] = analyzeSiblings( qnode_p, qnode_pp, separator );
         res.setGreatestCommonPrefixUp( greatest_common_prefix_up[ 0 ] );
         if ( greatest_common_prefix_up[ 1 ] != null ) {
@@ -106,8 +104,6 @@ public final class AnalysisSingle {
         return res;
     }
 
-   
-
     private final static String[] analyzeSiblings( final PhylogenyNode child,
                                                    final PhylogenyNode parent,
                                                    final String separator ) {
@@ -133,9 +129,9 @@ public final class AnalysisSingle {
         final String greatest_common_prefix = ForesterUtil.greatestCommonPrefix( ext_nodes_names, separator );
         return new String[] { greatest_common_prefix, conf };
     }
-    
+
     private final static String obtainConfidence( final PhylogenyNode n ) {
-        if ( n.getBranchData().getConfidences() != null && n.getBranchData().getConfidences().size() > 0 ) {
+        if ( ( n.getBranchData().getConfidences() != null ) && ( n.getBranchData().getConfidences().size() > 0 ) ) {
             final List<Confidence> confidences = n.getBranchData().getConfidences();
             boolean not_first = false;
             Collections.sort( confidences );