VMD-L Mailing List
From: Gamot, Ritchie (R.M.Gamot_at_warwick.ac.uk)
Date: Mon Aug 11 2014 - 04:54:30 CDT
Thank you for this suggestion. I have in fact done that before submitting the question. But i have this issue of the orientation of the faces. Because each particle will not have its faces the same orientation as with other particles.
I will be able to save this information in file (right now save the centers of each of the particles face) but i have yet to figure out how to do the maths so that i know how to move the second sphere (the twin sphere) so that it would properly represent the face information.
I am hoping someone could give me an idea on this dillemma.
From: Axel Kohlmeyer <akohlmey_at_gmail.com>
Sent: 10 August 2014 01:05
To: Gamot, Ritchie
Subject: Re: vmd-l: visualizing janus particles in VMD
On Sat, Aug 9, 2014 at 2:24 PM, Gamot, Ritchie <R.M.Gamot_at_warwick.ac.uk> wrote:
> Good day!
> I would like to know if anyone can give me an idea on how to represent a
> two-faced janus particles in VMD?
just use two spheres where each has a different atom type but the same
radius and place them a tiny bit apart.
> I am currently working on janus clusters (saving its particle centre and
> centre of each of its face). I wonder if there is a way to format my file so
> that it can be read into VMD and visualize it correctly.
just write them out in a file format that VMD supports. please note
that for most file formats, VMD expects
coordinates to be written out in the same order, since from all but
the first frame, only the coordinate information is read. exceptions
are only file formats that have an internal indexing (like for LAMMPS)
> Thank you very much!
-- Dr. Axel Kohlmeyer akohlmey_at_gmail.com http://goo.gl/1wk0 College of Science & Technology, Temple University, Philadelphia PA, USA International Centre for Theoretical Physics, Trieste. Italy.