in progress (special coloring is still true)

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

diff --git a/forester/java/src/org/forester/application/confadd.java b/forester/java/src/org/forester/application/confadd.java
index db01fd4..b48cde9 100644 (file)
--- a/forester/java/src/org/forester/application/confadd.java
+++ b/forester/java/src/org/forester/application/confadd.java
@@ -22,7 +22,7 @@
 // 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;
 
@@ -59,8 +59,13 @@ public class confadd {
     final static private String WWW              = "www.phylosoft.org/forester/";
 
     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() );
         CommandLineArguments cla = null;
         try {
             cla = new CommandLineArguments( args );
@@ -199,7 +204,7 @@ public class confadd {
         }
         double value = 1;
         if ( norm > 0 ) {
-            value = norm / ( 1 + last - first );
+            value = norm / ( ( 1 + last ) - first );
         }
         ForesterUtil.programMessage( PRG_NAME, "first topology to use: " + first );
         String is_last = "";
@@ -207,7 +212,7 @@ public class confadd {
             is_last = " (corresponds to last topology in file)";
         }
         ForesterUtil.programMessage( PRG_NAME, "last topology to use : " + last + is_last );
-        ForesterUtil.programMessage( PRG_NAME, "sum of topologies used as evaluators: " + ( last - first + 1 ) );
+        ForesterUtil.programMessage( PRG_NAME, "sum of topologies used as evaluators: " + ( ( last - first ) + 1 ) );
         if ( norm > 0 ) {
             ForesterUtil.programMessage( PRG_NAME, "normalizer: " + norm + " (" + ForesterUtil.round( value, 6 ) + ")" );
         }