VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Tue May 23 2006 - 13:05:51 CDT

Hi,
  Add:
menu main on

:-)

  John Stone
  vmd_at_ks.uiuc.edu

On Tue, May 23, 2006 at 11:10:47AM -0400, Osmany guirola Cruz wrote:
> Hi
> i put this in my .vmdrc file
>
> display projection Orthographic
> display depthcue on
> display cuemode Linear
>
> and works perfectly but the main window doesn't appear.(i have Display
> window and the console) if i delete de .vmdrc file and launch vme i get
> the three windows (xterm Display and main)
> what i am doing wrong?
>
> Osmany
>
>
>
>
>
>
>
> On Tue, 2006-05-23 at 10:26 -0400, Ch. Fufezan wrote:
> > Hi Alex,
> >
> > thanks for you help! I installed 1.8.4 and it works indeed.
> > Unfortunately by using the shell command "vmd -m pdbs/*.pdb",
> > the .vmdrc is executed after the pdbs are loaded, hence the mol
> > default entry only effects newly loaded pdbs. Again, I can imagine
> > writing a little script that loads all my pdb files but then the
> > beauty of "vmd -m *.pdb" is gone.
> >
> > Is there maybe a way around this?
> >
> > cheers,
> >
> > Christian
> >
> > On May 23, 2006, at 12:29 AM, Axel Kohlmeyer wrote:
> >
> > > On Mon, 22 May 2006, Christian Fufezan wrote:
> > >
> > > CF> Hello,
> > > CF>
> > > CF> is it possible to change the default settings for the
> > > CF> drawing and coloring method ?
> > >
> > > christian,
> > >
> > > as of version 1.8.4 VMD supports a 'mol default' command,
> > > so that you can change default visualization properties
> > > in your .vmdrc file. if you are locked into using some older
> > > version, you may want to check out the hack at:
> > >
> > > http://www.theochem.ruhr-uni-bochum.de/~axel.kohlmeyer/cpmd-vmd/
> > > part7.html#chap9_sect2
> > >
> > > CF>
> > > CF> I have a bunch of pdb files that are loaded via vmd -m
> > > CF> *.pdb and I would like to have them displayed as cpk using
> > > CF> coloring method beta. I know this can be done via a little
> > > CF> tcl script, looping over [molinfo num], but I think
> > > CF> changing the default settings would be more elegant.
> > >
> > > indeed.
> > >
> > > regards,
> > > axel.
> > >
> > > CF>
> > > CF> Thanks for your help
> > > CF>
> > > CF> Christian
> > > CF>
> > >
> > > --
> > > ======================================================================
> > > =
> > > Axel Kohlmeyer akohlmey_at_cmm.chem.upenn.edu http://
> > > www.cmm.upenn.edu
> > > Center for Molecular Modeling -- University of Pennsylvania
> > > Department of Chemistry, 231 S.34th Street, Philadelphia, PA
> > > 19104-6323
> > > tel: 1-215-898-1582, fax: 1-215-573-6233, office-tel: 1-215-898-5425
> > > ======================================================================
> > > =
> > > If you make something idiot-proof, the universe creates a better
> > > idiot.
> > >
> > 

-- 
NIH Resource for Macromolecular Modeling and Bioinformatics
Beckman Institute for Advanced Science and Technology
University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
Email: johns_at_ks.uiuc.edu                 Phone: 217-244-3349
  WWW: http://www.ks.uiuc.edu/~johns/      Fax: 217-244-6078