Dear all, I am using the pulling code in gromacs 4.0.5 with constant velocity pulling.
My case is pulling protein in two opposite directions, which I do not want any other extra force acting on the protein. So I did not assign any reference group in the simulation, and I got a warning saying that: absolut coordinates is used as reference group and it will cause artifacts. According to the manual, ( 0, 0, 0 ) is used as reference group, but I still do not understand what kind of artifacts could happen. The only thing I can think of is the periodical boundary, but I am not sure, could any one have any idea? Thanks! -- Senbo Xiao PICB, Shanghai, 200031 CHINA
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