in progress

[jalview.git] / forester / java / src / org / forester / archaeopteryx / Util.java

diff --git a/forester/java/src/org/forester/archaeopteryx/Util.java b/forester/java/src/org/forester/archaeopteryx/Util.java
index 91e36b1..198dc1a 100644 (file)
--- a/forester/java/src/org/forester/archaeopteryx/Util.java
+++ b/forester/java/src/org/forester/archaeopteryx/Util.java
@@ -57,7 +57,6 @@ import javax.swing.text.MaskFormatter;
 
 import org.forester.io.parsers.PhylogenyParser;
 import org.forester.io.parsers.tol.TolParser;
-import org.forester.io.parsers.util.PhylogenyParserException;
 import org.forester.phylogeny.Phylogeny;
 import org.forester.phylogeny.PhylogenyMethods;
 import org.forester.phylogeny.PhylogenyNode;
@@ -70,7 +69,7 @@ import org.forester.phylogeny.iterators.PreorderTreeIterator;
 import org.forester.util.DescriptiveStatistics;
 import org.forester.util.ForesterUtil;
 
-final class Util {
+public final class Util {
 
     private final static String[] AVAILABLE_FONT_FAMILIES_SORTED = GraphicsEnvironment.getLocalGraphicsEnvironment()
                                                                          .getAvailableFontFamilyNames();
@@ -614,19 +613,10 @@ final class Util {
         System.out.println( "[" + applet_name + "] > " + message );
     }
 
-    final static void printWarningMessage( final String name, final String message ) {
+    public final static void printWarningMessage( final String name, final String message ) {
         System.out.println( "[" + name + "] > " + message );
     }
 
-    final static Phylogeny[] readPhylogenies( final PhylogenyParser parser, final File file ) throws IOException {
-        final PhylogenyFactory factory = ParserBasedPhylogenyFactory.getInstance();
-        final Phylogeny[] trees = factory.create( file, parser );
-        if ( ( trees == null ) || ( trees.length == 0 ) ) {
-            throw new PhylogenyParserException( "Unable to parse phylogeny from file: " + file );
-        }
-        return trees;
-    }
-
     final static Phylogeny[] readPhylogeniesFromUrl( final URL url, final boolean phyloxml_validate_against_xsd )
             throws FileNotFoundException, IOException {
         final PhylogenyFactory factory = ParserBasedPhylogenyFactory.getInstance();