VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Fri Jun 04 2010 - 16:19:09 CDT

Luis,
  Does the main menu open when you type this command?:
menu main on

If so, then it must be more permissions issues caused by
the behavior of sudo and the resulting file umask on your machine.

If not, then tell me what this command says:
  vmdinfo options

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Fri, Jun 04, 2010 at 10:19:01AM -0500, Luis Guillermo Cota Preciado wrote:
> Hi John,
> There seems to be no .vmdinit file anywhere. The .vmdrc file that sits in
> /usr/local/lib/vmd is not empty, and there is no such file in my $HOME.
> Here's the ls -al dump of /usr/local/lib/vmd:
> drwxr-xr-x 6 root root 480 2010-06-04 01:24 .
> drwxr-xr-x 10 root root 272 2010-06-04 01:24 ..
> -rw-r--r-- 1 root root 2020 2010-06-04 01:24 Announcement
> drwxr-xr-x 2 root root 72 2010-06-04 01:24 doc
> -rwxr-xr-- 1 lgc lgc 246044 2009-05-11 12:54 libcudart.so.2
> -rw-r--r-- 1 root root 7753 2010-06-04 01:24 LICENSE
> drwxr-xr-- 5 lgc lgc 120 2009-08-01 01:44 plugins
> -rw-r--r-- 1 root root 14964 2010-06-04 01:24 README
> drwxr-xr-- 8 lgc lgc 216 2010-06-04 01:24 scripts
> drwxr-xr-- 3 lgc lgc 184 2009-08-01 01:41 shaders
> -rwxr-xr-x 1 root root 1167079 2010-06-04 01:24 stride_LINUX
> -rwxr-xr-x 1 root root 352948 2010-06-04 01:24 surf_LINUX
> -rwxr-xr-x 1 root root 176272 2010-06-04 01:24 tachyon_LINUX
> -rw-r--r-- 1 root root 3166 2010-06-04 01:24 vmd_completion.dat
> -rwxr-xr-x 1 root root 5921104 2010-06-04 01:24 vmd_LINUX
> -rw-r----- 1 root root 1813 2010-06-04 01:24 .vmdrc
> -rw-r----- 1 root root 1784 2010-06-04 01:24 .vmdsensors
> Thank you for your help.
> 2010/6/4 John Stone <johns_at_ks.uiuc.edu>
>
> Hi,
> Did you verify that the .vmdinit file in the installation
> directory is readable by a normal user? You might also check
> that you don't have an empty .vmdrc sitting around in your
> home directory. If neither of those is the problem, send me
> the 'ls -al' output on your installation directory and I'll have
> a quick look.
>
> Cheers,
> John Stone
> vmd_at_ks.uiuc.edu
> On Fri, Jun 04, 2010 at 02:32:23AM -0500, Luis Guillermo Cota Preciado
> wrote:
> > Hi,
> > I followed the instructions within the README file, to no avail,
> trying to
> > do a default installation. I had to -but of course!- use sudo in
> order to
> > proceed without errors. However, I ended up with no permissions for
> the
> > normal user, which I had to tweak by hand in order to get VMD
> running.
> > However, somehow the otherwise usual "main" window (whatever its
> name is),
> > the one for loading and displaying and all that, is absent. Just
> the
> > terminal and the visualization area are present.
> > What gives? Thanks.
>
> --
> 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 

-- 
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