(function(window, document, undefined) {
  "use strict";

  require.config({
    paths: {
      // Libraries
      "jquery": "../../libraries/jquery/jquery",
      "hljs": "../../libraries/highlightjs/highlight.pack",
      // /Libraries

      // Application
      "app": "app",
      // /Application
    },

    shim: {
    }
  });

  require(["jquery", "app"],
  function( $,        App) {
    var app = App.create({
      name: "voxel",
      useHighlight: true
    });

    console.log("App, %s, with jQuery v%s says, '%s'", app.options.name, $.fn.jquery, app.greet());
  });
})(window, document);

@@ -1,64 +1,4 @@
-(function(window, document, undefined) %7B%0A  %22use strict%22;%0A%0A  
 requ
@@ -10,18 +10,16 @@
 onfig(%7B%0A
-  
   paths:
@@ -25,18 +25,16 @@
 : %7B%0A    
- 
- 
 // Libra
@@ -38,18 +38,16 @@
 braries%0A
-  
     %22jqu
@@ -85,18 +85,16 @@
 query%22,%0A
-  
     %22hlj
@@ -143,26 +143,24 @@
 .pack%22,%0A    
-  
 // /Librarie
@@ -165,82 +165,14 @@
 ies%0A
-%0A      // Application%0A      %22app%22: %22app%22,%0A      // /Application%0A  
   %7D,%0A%0A
-  
   sh
@@ -183,21 +183,15 @@
 %7B%0A  
-  %7D%0A  
+%7D%0A
 %7D);%0A%0A
-  
 requ
@@ -213,18 +213,16 @@
 %22app%22%5D,%0A
-  
 function
@@ -242,18 +242,16 @@
 pp) %7B%0A  
- 
- 
 var app 
@@ -269,18 +269,16 @@
 e(%7B%0A    
-  
 name: %22v
@@ -284,18 +284,16 @@
 voxel%22,%0A
-  
     useH
@@ -311,19 +311,15 @@
 rue%0A
-  
   %7D);%0A%0A
-  
   co
@@ -416,32 +416,8 @@
 ));%0A
-  
 %7D);%0A
-%7D)(window, document);%0A

Remove IIFE and app module path.