Clean up the code according to codestyle:

Clean up the code according to codestyle:
(1) remove some C++ comments.
(2) remove trailing white space.
(3) remove trailing empty line.
(4) Indentation by table.
(5) remove {} in one line condition.
(6) add space before '(' in function call.
Remove some weird printf () output.
Add necessary comments.
Modified Makefile to support building in a separate directory.