Work on ipcontroller.

* The IPControllerApp now uses ApplicationWithDir to manage the app_dir.
* The setup.py script and ipcontroller script have been updated to use
  the new IPControllerApp.
* launch_new_instance created and being used.

setup.py

@@ -169,7 +169,7 @@ if 'setuptools' in sys.modules:
         'console_scripts': [
             'ipython = IPython.core.ipapp:launch_new_instance',
             'pycolor = IPython.utils.PyColorize:main',
-            'ipcontroller = IPython.kernel.scripts.ipcontroller:main',
+            'ipcontroller = IPython.kernel.ipcontrollerapp:launch_new_instance',
             'ipengine = IPython.kernel.scripts.ipengine:main',
             'ipcluster = IPython.kernel.scripts.ipcluster:main',
             'ipythonx = IPython.frontend.wx.ipythonx:main',