-#summary One-sentence summary of this page.
-
= Introduction =
-Add your content here.
+Under development!
+
+Documentation, tutorial, and examples for [http://www.phylosoft.org/forester/ forester].
+
+Author: [http://www.cmzmasek.net/ Christian M Zmasek], Sanford-Burnham Medical Research Institute
+
+
+Copyright (C) 2011 Christian M Zmasek. All rights reserved.
+
+
+= Reading in Trees and Displaying them with Archaeopteryx =
+
+This needs file "forester.jar" to be in the class-path.
+
+{{{
+
+package my.examples;
+
+import java.io.File;
+import java.io.IOException;
+
+import org.forester.archaeopteryx.Archaeopteryx;
+import org.forester.archaeopteryx.Util;
+import org.forester.io.parsers.PhylogenyParser;
+import org.forester.phylogeny.Phylogeny;
+import org.forester.util.ForesterUtil;
+public class Example1 {
-= Details =
+ public static void main( final String[] args ) {
+ // Reads in (a) tree(s) from a file.
+ final File treefile = new File( "/home/czmasek/tol_117_TEST.xml" );
+ PhylogenyParser parser = null;
+ try {
+ parser = ForesterUtil.createParserDependingOnFileType( treefile, true );
+ }
+ catch ( final IOException e ) {
+ e.printStackTrace();
+ }
+ Phylogeny[] phys = null;
+ try {
+ phys = Util.readPhylogenies( parser, treefile );
+ }
+ catch ( final IOException e ) {
+ e.printStackTrace();
+ }
+ // Display of the tree(s) with Archaeopteryx.
+ Archaeopteryx.createApplication( phys );
+ }
+}
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- * Headings, paragraphs, and lists
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+}}}
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