Generate lowercase ids.

HybridProjectConventions generated application ids are now all lower
case.
JBIDE-16659 - Create merges sub directories 

This creates the platfom sub-directories for the platforms supported by
the tools at the time of project creation.
JBIDE-16744 - Update ios-sim for XCode 5.1 compatability

Upgrades ios-sim to version 1.9 and cleans up some code.