Fix for #151
Merge pull request #188 from rmcgibbo/fix3

#define FLEXBILE by default in gromacstopfile
Fix
Merge pull request #189 from rmcgibbo/fix

Fix for PR #149
typo
Merge pull request #190 from rmcgibbo/typo

typo
Created ThreadPool to simplify parallel code
Added a missing dependency on pthreads
Further optimizations to CPU nonbonded force
Merge pull request #191 from peastman/master

Further improvements to CPU platform
Minor optimizations to CPU platform: avoid applying periodic boundary conditions unnecessarily
Also use the previous optimization with reaction field
Merge pull request #193 from peastman/master

Minor optimizations to CPU platform: avoid applying periodic boundary conditions unnecessarily
Skip all /internal directories when building Python wrappers.  This allows the configuration file to be simplified.
Merge pull request #195 from peastman/master

Skip all /internal directories when building Python wrappers.
include what you use
Merge pull request #200 from rmcgibbo/pgi

include what you use