Adding more documentation to all main source files and making sure the documentation is generated according to PETSc standards.

Adding documentation to the DMMoabOutput API routine.

Cleaning up DMMoab and splitting the monolithic implementation into smaller files for organization based on field-management and io. Adding several variables to core DMMoab data structure to cache th

Cleaning up DMMoab and splitting the monolithic implementation into smaller files for organization based on field-management and io. Adding several variables to core DMMoab data structure to cache the necessary IDs for FEM-type assembly and traversals. Removed all references to Section since profiling indicated that this was slow overall.

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