I am working with some code that was written for a different compiler/linker, and it is including files like this:
#include
I'm not quite sure if I understand your explanation, what do you mean with "from the root of the project". But well...
When you use the #include directive with <> what your are telling the compiler is to look for the the file on the Directories you include with -I option.
In code blocks go to Project->Build Options->Search Directories->Compiler
And add the folder path to the folder containing "Engine".
You can find more info here http://msdn.microsoft.com/en-us/library/36k2cdd4(v=vs.71).aspx
Edit: Before trying anything, try #include "path/somefile.h"
instead of #include