Not sure what you are trying to achieve, but somethings that might help/
Windows doesn't run on the Pi, and Window's programs do not run on the Pi.
If you have a C file, you need to compile it before it will run. Have you done that?
Do you mean run automatically when the system starts up?
Principal Software Engineer at Raspberry Pi (Trading) Ltd.
Please direct all questions to the forum, I do not do support via PM.