new file:   src/dynamo/dynamo/interactions/PRIME20_hydrogenbond.cpp
   new file:   src/dynamo/dynamo/interactions/PRIME20_hydrogenbond.hpp
added ID_array method. Uses angular brackets for functionality I dont
know about yet.
   renamed:    PRIME20_hydrogenbond.hpp -> PRIME_hbond.hpp
   modified:   squarewell.cpp
   modified:   squarewell.hpp
   modified:   PRIME_hbond.hpp
   modified:   PRIME_hbond.cpp (bug fix)
   modified:   PRIME_hbond.cpp
   modified:   PRIME_hbond.cpp
Initial cleanup of the repository, before adding the basic PRIME
Added the barebones of the new PRIME interaction
Starting on the implementation
Added functions to determine the bead type and the distance down the chain
Suspended work as I can't figure out how to neatly handle the pseudo-bond interactions between groups.
Finished the diameter lookup for PRIME
Finished the implementation of the PRIME model
   renamed:    PRIME.cpp -> PRIME_BB.cpp
   renamed:    PRIME.hpp -> PRIME_BB.hpp
   modified:   include.hpp
   modified:   interaction.cpp
   new file:   ../../../../test/PRIME_polyalanine.test.xml
   new file:   ../../../../test/PRIME_polyalphabet.test.xml
   new file:   ../../../../test/PRIME_polyglycine.test.xml
Reduced initial distances to allow for overlap resolution.
Improved error reporting for misconfigured species, also updated the
PRIME_polyalanine.test.xml configuration so it at least loads, even
though it might not run.
Added much better debugging output for the PRIME interaction
Added a better warning for when the neighbourlist runs out of memory
   modified:   src/dynamo/dynamo/interactions/PRIME_BB.cpp
   deleted:    src/dynamo/dynamo/interactions/PRIME_hbond.cpp
   deleted:    src/dynamo/dynamo/interactions/PRIME_hbond.hpp