Adding experimental branch for calculation of the heatflux based on old version of OpenMD. This will need to be ported to the development branch later.
Adding property set to svn entries
Almost all of the changes necessary to create OpenMD out of our old project (OOPSE-4)
Inversion fixes and amber mostly working
Changes for implementing Amber force field: Added Inversions and worked on BaseAtomTypes so that they'd function with the fortran side.
made some minor changes to allow compilation with the portland group compilers
End of the Link --> List Return of the Oject-Oriented replace yacc/lex parser with antlr parser
fix a bug in creating cutoffGroup. When cutoffGroup is turned off, there is a mismatch between group and center of mass array
xemacs has been drafted to perform our indentation services
Using OOPSE_itoa and checking a NULL left over from the LinkedList days
adding SelectionManager into SimInfo
(1) complete section parser's error message (2) add GhostTorsion (3) accumulate inertial tensor from the directional atoms before calculate rigidbody's inertial tensor
merging new_design branch into OOPSE-2.0
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