Fix format.bat script

This commit resolves following issues with format.bat:
  * format.bat can be launched from anywhere
  * All source files are provided to astyle
  * Prerequisites.hpp is separately parsed to indent namespaces

Change-Id: I944e8c76c05d3947bba686d33a607b0a33b907c5
Use new formatting script to reformat sources

This is a result of running Scripts/format.bat. This was run with newest
astyle 2.05

Verification:
    Run Scripts/format.bat. No file should be changed (except for
    Prerequisites.hpp, which will firstly be modified on first run, and
    then adjusted in second run of astyle).

Change-Id: Iea1075b3ac80cb76ad655abda4fb0b6292155097