Individual ForceField classes have been removed (they were essentially all duplicates anyway). ForceField has moved to brains, and since only one force field is in play at any time, the ForceFieldFactory and Register methods have been removed.
Added an adapter layer between the AtomType and the rest of the code to handle the bolt-on capabilities of new types. Fixed a long-standing bug in how storageLayout was being set to the maximum possible value. Started to add infrastructure for Polarizable and fluc-Q calculations.
updated copyright notices
Bug squashing
still busted, but much progress
compiles, builds and runs, but is very slow
Less busted than it was on last check-in, but still won't completely build.
Many changes, and we're not quite done with this phase yet.
Added GB module to the C++ side, got rid of it on the fortran side.
fixed some destructor bugs dealing with the TypeContainers
fixing calls
Added nonbonded directory. Compiles, links, runs, but gives incorrect answer.
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