diff -u -r1.2 -r1.3
--- CommandLineProcessor.java	7 Mar 2008 01:26:05 -0000	1.2
+++ CommandLineProcessor.java	7 Mar 2008 01:45:31 -0000	1.3
@@ -28,7 +28,7 @@

  * Main.
  * 
  * @author Jeremy McCormick

- * @version $Id: CommandLineProcessor.java,v 1.2 2008/03/07 01:26:05 jeremy Exp $

+ * @version $Id: CommandLineProcessor.java,v 1.3 2008/03/07 01:45:31 jeremy Exp $

  */
 public class CommandLineProcessor
 {

@@ -297,10 +297,11 @@

         {
         	if (cl.hasOption("O") || _userOptions.getBooleanOption("config.autoname"))
         	{

-        		//System.out.println("filename from autoname");
-        		
-        		// Override possible UserOption setting.
-        		_userOptions.setStringOption("config.outputFile", _infiles.get(0).toString().replace(".slcio", ""));

+                        String fileName = _infiles.get(0).toString();
+                        fileName = fileName.replace(".slcio","");
+                        fileName = fileName.substring(fileName.lastIndexOf(File.separator)+1);
+                        
+        		_userOptions.setStringOption("config.outputFile", fileName);

         	}
         }