Make new swapm options in rearrange runtime configurable

[rljacob]

The new swapm options from PR #38 are fixed. Make they configurable at runtime on a per-call basis.

[worleyph]

The ocean spin-up jobs that are running on Titan at the moment really do not like handshaking protocol with the current PE layout. I don't know how best to set communication protocols for these individual calls, when they are sensitive to active/dead component interactions and to PE layout. Unfortunately, the performance differences are so dramatic that we will have to do something. For PIO, the communication patterns tend to fall into one of two different categories (M-to-N and N-to-M). I do not know the MCT communication patterns at all, and do not know if we can determine at runtime what type of protocol to use. If we could, that might make this feasible.