GitLab

Implemented setting random seed for reference platform, as well as adding it as an option to BrownianIntegrator and AndersenThermostat.

Checked in explicit solvent implementation for Cuda platform (cutoffs, periodic boundary conditions, SETTLE)

Made setting of RNG seed consistent w/ logic used for Cuda 

Minor edits; force duplicationFactor to 1 if no. particles < 65; for system w/ 32 atoms, NAN were appearing in nonbonded force term; plan to fix later

Added more ik,jl gathers for bonded forces
Redid shared #define setting in CMakeList.txt

because virgin computers without CUDA generate loads of errors trying
to find CUDA on cmake run.

Modified/added CMake commands to allow input file name argument to be passed to TstBrookGBSAOBCForce
Renamed TestBrookGBSAOBCForce.cpp to TstBrookGBSAOBCForce.cpp as part of adding command-line arg
Modified TstBrookGBSAOBCForce.cpp to accept arg
brook/CMakeLists.txt modified to allow developer to set flag for static libs/exes 

Fixed setting of runtime in BrookPlatform() constructor (constructor w/o args):
if 'brt_runtime' env variable not set, then
internal 'runtime' variable was NULL -- this led to a fault when _setBrookRuntime() was called