[gmx-users] basic units: acceleration conflict
CIHAN NADIR KAPLAN
CIKAPLAN at KU.EDU.TR
Sat Jun 14 12:30:10 CEST 2008
In the Gromacs manual, the basic units for length and time are given by nm(=10^-9 m) and ps(=10^-12s), respectively. When one wants to accelerate a group, he should include it in the *.mdp file in the units of nm/ps^2, which corresponds to 10^15 m/s. So , for instance, when you set the acceleration in x direction greater than ~10^-7 in the mdp file, then according to given units, it is not unphysical. Even, in order to avoid relativistic effects, it seems it should be set less than ~10^-9, but the manual says "GROMACS uses a consistent set of units that produce values in the vicinity of unity for most
relevant molecular quantities" (p.7).
Can anyone please explain the logic behind choosing nm/ps^2 ? Any help will be greatly appreciated.
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