From: Luca Muccioli (luca_at_ms.fci.unibo.it)
Date: Thu Mar 15 2007 - 06:50:43 CDT
On Thu, 15 Mar 2007, Pedro Borkowski wrote:
> Hey,
>
> I was wondering why is it necessary to minimize the system before
> running molecular dynamics.
> I was wondering what would happen if the system was not minimized
> before running molecular dynamics.
>
> Many thanks
>
dear Pedro,
depending on the tools that you use for building the starting
configuration, it may happen than some molecules/atoms result partially
superimposed. This leads to strongly repulsive forces and enormous
velocities, that determine the "explosion" of the sample or the crash of
your run; both things can be easily circunvented with a small preliminary
minimization. An alternative can be using a very tiny timestep at the
beginning, but doesn't always work.
ciao
Luca
-------------------------------------------
Luca Muccioli, Ph. D.
Dipartimento di Chimica Fisica e Inorganica
Universita` di Bologna
Via Risorgimento 4
40136 Bologna (Italia)
E-mail: luca_at_fci.unibo.it
Phone: +39-051-6446992
Fax: +39-051-2093690
Web: http://www2.fci.unibo.it/~luca/
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