Sorry was not trying to be rude or anything. I'll name the pins then re-post the code.
Capstone Design incorporates many disciplines, unfortunately my team has only Mechanical Engineers. We do have experience using MATLAB for mathematical/engineering problems. The projects are not provided by the school but by sponsors through the school. The sponsors give you the project scope and funding then you run with it. We did not have to use a micro controller, we could have used mechanical relays but the micro-controller is obviously superior. The Arduino makes this easier with lots of books and online help.
The point of the program is to use and engineering approach to develop a solution to a given problem. Some of the solutions may require, as is the case with this project, using knowledge outside of our discipline or seeking someone knowledgeable in said discipline, which is exactly what I am doing here.