[gmx-users] gmx-users] Atoms Exploded

[David]

On Sat, 2003-09-20 at 21:09, Albert Sun wrote:
> Hi, Dear Anton,
> Atoms exploded problem still remains,  when I view  .trr  file by VMD,
> all atoms suddenly disappear.
> I  tried ngmx, it had error:  float exception. 
> I tried trjconv -dump, it showed warning: "no output, trajectory ended
> at 3"  
>  
> could you give me more hints ?   


It seems to me that you have just a weird system with all atoms placed
in a plane, and large forces between them.

If you intend to simulate some sort of two dimensional crystal, you
should probably start with simple Lennard Jones particles.
-- 
Groeten, David.
________________________________________________________________________
Dr. David van der Spoel, 	Dept. of Cell and Molecular Biology
Husargatan 3, Box 596,  	75124 Uppsala, Sweden
phone:	46 18 471 4205		fax: 46 18 511 755
spoel at xray.bmc.uu.se	spoel at gromacs.org   http://xray.bmc.uu.se/~spoel
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