VMD-L Mailing List

From: Peter Mawanga (peter.mawanga.lagos_at_gmail.com)
Date: Tue May 30 2017 - 08:40:32 CDT

Thanks to all

Indeed GLSL and GlassBubble or BlownGlass do the job perfectly.

On Thu, May 25, 2017 at 1:25 AM, John Stone <johns_at_ks.uiuc.edu> wrote:

> Hi,
> I would recommend using the "GlassBubble" material
> (with Display | Rendermode set to GLSL), and draw the atoms
> using the "VDW" representation. That will give you a circular
> outline for each atom without having to do anything special.
> To draw a 2-D circle otherwise is trickier than one might guess,
> because the circle(s) must be made to align in plane(s) orthogonal
> to the viewing direction, and this/these would have to be recomputed
> as the view direction changes. I think that using the "GlassBubble"
> material (or a variation thereof) is much simpler and more convenient.
> If you want to ensure a perfectly circular edge on the "GlassBubble"
> material, use the Orthographic projection mode,
> turn off all lights except for light 0, and then issue the
> command "light 0 pos {0 0 1}", and you should get the sort of
> results you're after.
>
> Cheers,
> John Stone
> vmd_at_ks.uiuc.edu
>
> On Wed, May 24, 2017 at 02:25:35PM +1000, Dallas Warren wrote:
> > 2 dimensional rings, or a 3D sphere?
> >
> > For the latter, as already mentioned, you can change the material that
> > a representation like VDW is made with, allowing you to see through
> > it. There are a number of preset materials. Additionally, something
> > like the Surf can be rendered as a wireframe, rather than a solid
> > surface.
> > Catch ya,
> >
> > Dr. Dallas Warren
> > Drug Delivery, Disposition and Dynamics
> > Monash Institute of Pharmaceutical Sciences, Monash University
> > 381 Royal Parade, Parkville VIC 3052
> > dallas.warren_at_monash.edu
> > ---------------------------------
> > When the only tool you own is a hammer, every problem begins to resemble
> a nail.
> >
> >
> > On 24 May 2017 at 11:58, Peter Mawanga <peter.mawanga.lagos_at_gmail.com>
> wrote:
> > > Thanks Karteek
> > >
> > > I had not phrased my question correctly. I want to represent atoms with
> > > hollow circles instead of filled ones. I haven't been able to find a
> way to
> > > do that.
> > >
> > > On Wed, May 24, 2017 at 10:37 AM, Karteek Kumar <karthik3327_at_gmail.com
> >
> > > wrote:
> > >>
> > >> Try with this:
> > >>
> > >> draw material Transparent
> > >> draw sphere { 0 0 0 } radius 20.0 resolution 500
> > >>
> > >> Hope this works!!!
> > >>
> > >> Karteek
> > >>
> > >> On Tue, May 23, 2017 at 8:02 PM, Peter Mawanga
> > >> <peter.mawanga.lagos_at_gmail.com> wrote:
> > >>>
> > >>> Hello to all
> > >>>
> > >>> Is there any way I could draw hollow circles in VMD? Please let me
> know.
> > >>>
> > >>> --
> > >>> Cheers
> > >>> Peter
> > >>
> > >>
> > >
> > >
> > >
> > > --
> > > Cheers
> > > Peter
>
> --
> NIH Center for Macromolecular Modeling and Bioinformatics
> Beckman Institute for Advanced Science and Technology
> University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
> http://www.ks.uiuc.edu/~johns/ Phone: 217-244-3349
> http://www.ks.uiuc.edu/Research/vmd/
>
> 

-- 
Cheers
Peter