Made quickLate aware of Hmat. quickLate is now somewhat more intelligent about periodic boundaries and wrapping.
added more command line arguments
Broken SysBuilder
added a nanoSysBuilder that takes different cmd line arguments.
Fixed Hmat and some namespace strangeness
Added nanoBuilder and a general Lattice builder.
cleaned up the dependecy scripts in the makefiles
fixed the bugs introduced by switching the periodic box to a matrix
Most of the integrator and NVT seem to be working now.
currently modifiying Symplectic to become the basic integrator. bilayerSys.cpp altered for building tb3.
all seems to be working
still working on the bilayer code
doing some work to overhaul sysbuild.
i quick fix to th distance in the random bilayer builder
fixed up sysBuild to where it should now build our systems
almost finished.
bilayerSys and sysBuild both will build now. woot!
finished bilayerSys.cpp sysBuild still need to write the bass file. MoLocator.cpp is currently empty
working on the system builder
working on a system builder
added Ghost bends to the TraPPE_Ex forceField added sysBuild to the utils Makefile
Changed Readme, added some files