many changes to keep track of particle potentials for both bonded and non-bonded interactions
Inversion fixes and amber mostly working
Adding single precision capabilities to c++ side
OptionSectionParser get compiled
Fix the other branch of force calculation in Torision.cpp
xemacs has been drafted to perform our indentation services
merging new_design branch into OOPSE-2.0
change the #include in source files
Import of OOPSE v. 2.0
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