What file isn't being found? My guess would be that it is a library that you are trying to dynamically link to but it would be helpful if you could copy and paste the text from error you are getting in your next post.
Sounds like a project mismatch problem.
You probably changed the Output folder, and VS2012 is trying to run the executable based on where it was located BEFORE.
Try to keep them in default folders, or re-set the application path based on where it actually is compiled to.
I've complied the program through Command Prompt, and it indicating errors in my code which weren't picked up in the IDE. I'll correct these errors, and see if it makes a difference.