Make all extension api types fully qualified.

tools/json_schema_compiler/test/dependencyTester.json

 // Copyright (c) 2012 The Chromium Authors. All rights reserved.
 // Use of this source code is governed by a BSD-style license that can be
 // found in the LICENSE file.
 
 [
   {
     "namespace": "dependencyTester",
     "dependencies": [ "browserAction", "fontSettings" ],
     "types": [],
     "functions": [
       {
         "name": "setTitle",
         "type": "function",
         "description": "hi",
         "parameters": [
           {
             "name": "details",
             "type": "object",
             "properties": {
               "color": {
-                "$ref": "ColorArray"
+                "$ref": "browserAction.ColorArray"
               },
               "scriptCode": {
-                "$ref": "ScriptCode"
+                "$ref": "fontSettings.ScriptCode"
               }
             }
           }
         ]
       }
     ]
   }
 ]