add in new c source files
change filemanager.h to c code
delete c++ source files
Implementing the reader
Made some style changes and add in util submodule
compiles and doesn't segfault
add in util.c for reverseComplement
changed many files back to c++

Now using a hybrid approach using some c and some c++. Getting
the best of both worlds is so much better than trying to learn c.
Merge branch 'c_rewrite'

Conflicts:
	Makefile
	fileManager.cpp
	fileManager.h
	main.cpp