[gmx-users] Re: Re: trr visualization

Kia Balali-Mood Kia.Balali-Mood at ed.ac.uk
Fri Nov 12 11:25:46 CET 2004

Hi Cesar,

NGMX can write pdb or gro files if u  click on file > export and specify a file
name either *.gro or *.pdb, it will only give u co-ordinate files and u can
stop the animation at any point to save a co-ordinate file.

Though I should point out that ngmx doesn't give u velocities of ur system!!!


> On Thu, 2004-11-11 at 14:22 -0800, Cesar Lopez wrote:
> > Hi anybody:
> >
> > I have some problems with .trr files
> > visualizations,nowadays I have the VMD package
> > installed in my pc, when I try to load a trr file, the
> > software load the file, but indeed I can't see
> > anything in the screen. I tried to use the VEGA
> > package to see the .xtc file generated by Gromacs, but
> > the software can't open it !
> In VMD you first load a pdb file then a trr or xtc file.
> >
> > There is only a way to see the file and is with the
> > comand ngmx, but the resolution is not good and it
> > can't write pdb files.
> > Can anybody help me with it?
> > Thank you very much
> > Cesar
> >

Kia Balali-Mood
Laboratory of Membrane Biophysics
Division of Veterinary Biomedical Sciences
College of Medicine & Veterinary Medicine
The Vet School
University of Edinburgh
Edinburgh, EH9 1QH
Tel. +44 (0)131 650 6142
Fax. +44 (0)131 650 6576

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