X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=forester%2Fjava%2Fsrc%2Forg%2Fforester%2Futil%2FForesterUtil.java;h=ef302002c9f3bd1d637b361d739750841dfb4998;hb=08bd889bc13de7415319ea7202d8afb27879c18d;hp=9d9570d66cfde3076fb0235fb47283eb599fecd4;hpb=1542f37267c30e690b840d4552234f1f70598a46;p=jalview.git

diff --git a/forester/java/src/org/forester/util/ForesterUtil.java b/forester/java/src/org/forester/util/ForesterUtil.java
index 9d9570d..ef30200 100644
--- a/forester/java/src/org/forester/util/ForesterUtil.java
+++ b/forester/java/src/org/forester/util/ForesterUtil.java
@@ -61,6 +61,11 @@ import java.util.TreeMap;
 import java.util.TreeSet;
 import java.util.regex.Pattern;
 
+import org.forester.phylogeny.PhylogenyNode;
+import org.forester.phylogeny.data.Distribution;
+import org.forester.phylogeny.data.Sequence;
+import org.forester.phylogeny.data.Taxonomy;
+
 public final class ForesterUtil {
 
     public final static String       FILE_SEPARATOR                   = System.getProperty( "file.separator" );
@@ -90,6 +95,30 @@ public final class ForesterUtil {
     private ForesterUtil() {
     }
 
+    public static void ensurePresenceOfTaxonomy( final PhylogenyNode node ) {
+        if ( !node.getNodeData().isHasTaxonomy() ) {
+            node.getNodeData().setTaxonomy( new Taxonomy() );
+        }
+    }
+
+    public static void ensurePresenceOfSequence( final PhylogenyNode node ) {
+        if ( !node.getNodeData().isHasSequence() ) {
+            node.getNodeData().setSequence( new Sequence() );
+        }
+    }
+
+    final public static void ensurePresenceOfDistribution( final PhylogenyNode node ) {
+        if ( !node.getNodeData().isHasDistribution() ) {
+            node.getNodeData().setDistribution( new Distribution( "" ) );
+        }
+    }
+
+    final public static void ensurePresenceOfDate( final PhylogenyNode node ) {
+        if ( !node.getNodeData().isHasDate() ) {
+            node.getNodeData().setDate( new org.forester.phylogeny.data.Date() );
+        }
+    }
+
     final public static void appendSeparatorIfNotEmpty( final StringBuffer sb, final char separator ) {
         if ( sb.length() > 0 ) {
             sb.append( separator );
@@ -742,7 +771,7 @@ public final class ForesterUtil {
     }
 
     final public static void printErrorMessage( final String prg_name, final String message ) {
-        System.out.println( "[" + prg_name + "] > error: " + message );
+        System.err.println( "[" + prg_name + "] > error: " + message );
     }
 
     final public static void printProgramInformation( final String prg_name, final String prg_version, final String date ) {