MERGE OpenMD trunk changes 1803:1811 into development branch
Adding Joseph's FlucQ samples for testing
Fixing some bugs in optimization, fixing status functions so that they dump correctly (although some things are deferred until the Stats is accumulator-based).
fixing some bugs, adding Shake
added a minimizer parsing block
fixing the build system
Creating busticated version of OpenMD
Added svn revision number to build process, incremented minor version number, corrected a minimizer keyword
removing spurious cutoffGroup lines from default water.md sample files
Almost all of the changes necessary to create OpenMD out of our old project (OOPSE-4)
Fixed Makefile problems with the samples and added several missing makefiles.
converted samples over to the OOPSE-4 file format Fixed an MPI bug in thermodynamic integration
remove deprecated keywords from samples
fixing up some samples
fixed up some sample md files
Remove some Makefile.in
add Makefile to sample directory
Import of OOPSE v. 2.0