Test to see if we can eliminate a bug in MPI runs involving RNEMD.
MERGE OpenMD development 1783:1878 into trunk
switched to a base accumulator to make the hidden function warnings from the intel compiler go away.
MERGE OpenMD development branch 1465:1781 into trunk
Fixes to mdParser to handle vector assignments, fixes for VelocityVerletIntegrator deleting rnemd_ when it doesn't exist yet.
Cleaning up RNEMD log, adding XY area to Snapshot
Adding new RNEMD options and output file format
Reorganized source directories, added RNEMD and flucQ blocks for options parsing.
Fixed compilation issues
resolved
Merging Shenyu's RNEMD changes from openmd-1 into the development branch.
updated copyright notices
Merging changes from old branch into development branch
Creating busticated version of OpenMD
Adding property set to svn entries
Almost all of the changes necessary to create OpenMD out of our old project (OOPSE-4)
added RNEMD scaling
Parallel version of RNEMD
Added a getStatus routine to check the temperatures
fixed some bugs, added some logic to sort stuntdoubles
Adding options to RNEMD for selecting particular StuntDoubles
Added handlers to Integrator to call RNEMD at the right times. Added initialization to RNEMD to make sure values from the MD file are available.
Adding RNEMD
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