fixed two bugs in MPI version of InitfromFile and one unmatch MPI command in DumpWriter
Dump2XYZ is almost working except atoms in rigidbody are double counted
new implement of quickLate using visitor and composite pattern
Changes for RigidBody dynamics (Somewhat extensive)
add LARGEFILE_SOURCE64 macro to support large file
Adding zsub, a program which can be used to replace atom type for zconstraint into OOPSE
added template stuff to the Maikefile template little changes to some printf format statements
replace c++ header stuff with more portable c header stuff Also, mod file fixes and portability changes Some fortran changes will need to be reversed.
Changed DumpReader to use linked lists instead of a vector. Fixed the makefile to build DumpReader.cpp Removed a comment output in Exclude.cpp Modified DumpWriter and Integrator to write an eor file every time a frame is written. This lets the .eor file represent the last written frame of a simulation.
working on the props code
added the scan function to the DumpReader. It should now save the start of each frame in a vector.
making some changes to read dump files
some initial changes to Dumpwriter and friends to accomadate random file access
Started work on a DumpReader
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