Your substrate (soil) was too wet, and anaerobic bacteria killed off everything else. (the bad smell)
I would dump it all out, and let it dry out. Then repack into containers, and re-inoculate with your choice of myco, bacteria, or whatever.
Edit: You don't need 'airholes' in your containers. As long as they are not airtight, its fine. In fact, fungi colonize best in a minimum airflow environment. (IE: the ground)
Supersoil cultivation, and organic growing, works best with a bit of mycology knowledge.