Timing problems moving from sopc_builder to Qsys

Also, regarding the allowed number of pipeline stages, I would try several values, as adding pipeline stages might even lower the LE count (don't ask me how, I just saw it in their Qsys migration video). The good thing is that it will probably eliminate all timing problems (one of the reasons that I want to make the transition to Qsys), so as others suggested, try it out.