inprogress

[jalview.git] / forester / java / src / org / forester / application / count_support.java

diff --git a/forester/java/src/org/forester/application/count_support.java b/forester/java/src/org/forester/application/count_support.java
index 96a7596..9be5f89 100644 (file)
--- a/forester/java/src/org/forester/application/count_support.java
+++ b/forester/java/src/org/forester/application/count_support.java
@@ -21,7 +21,7 @@
 // Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
 //
 // Contact: phylosoft @ gmail . com
-// WWW: www.phylosoft.org/forester
+// WWW: https://sites.google.com/site/cmzmasek/home/software/forester
 
 package org.forester.application;
 
@@ -50,13 +50,18 @@ public class count_support {
     final static private String  PRG_NAME                = "count_support";
     final static private String  PRG_VERSION             = "1.0";
     final static private String  PRG_DATE                = "2008.03.04";
-    final static private String E_MAIL        = "phylosoft@gmail.com";
-    final static private String WWW           = "www.phylosoft.org/forester/";
+    final static private String  E_MAIL                  = "phylosoft@gmail.com";
+    final static private String  WWW                     = "www.phylosoft.org/forester/";
     private final static boolean WRITE_EVALUATORS_AS_NHX = false;
 
     public static void main( final String args[] ) {
-         ForesterUtil.printProgramInformation( PRG_NAME, null, PRG_VERSION, PRG_DATE, E_MAIL, WWW, ForesterUtil.getForesterLibraryInformation() );
-        
+        ForesterUtil.printProgramInformation( PRG_NAME,
+                                              null,
+                                              PRG_VERSION,
+                                              PRG_DATE,
+                                              E_MAIL,
+                                              WWW,
+                                              ForesterUtil.getForesterLibraryInformation() );
         if ( ( args.length < 3 ) || ( args.length > 7 ) ) {
             System.out.println();
             System.out.println( count_support.PRG_NAME + ": wrong number of arguments" );
@@ -181,7 +186,6 @@ public class count_support {
                     }
                     else {
                         w.toNewHampshire( evaluator_phylogenies_above_threshold,
-                                          true,
                                           branch_lengths_in_ev_out,
                                           evaluators_outfile,
                                           ";" + ForesterUtil.getLineSeparator() );
@@ -195,7 +199,7 @@ public class count_support {
                                            ";" + ForesterUtil.getLineSeparator() );
                     }
                     else {
-                        w.toNewHampshire( Arrays.asList( ev ), true, branch_lengths_in_ev_out, evaluators_outfile, ";"
+                        w.toNewHampshire( Arrays.asList( ev ), branch_lengths_in_ev_out, evaluators_outfile, ";"
                                 + ForesterUtil.getLineSeparator() );
                     }
                 }