From: Axel Kohlmeyer (
Date: Wed Jan 03 2007 - 09:43:38 CST

On Wed, 3 Jan 2007, christopher wrote:

CB> Hello everyone,


CB> I have a two part question. I installed VMD on one linux box and the GL
CB> window is not centered properly. What were the setenv variables i need
CB> to define and what are the options?

please see the manual:

or the vmd script itself. i personally prefer changing the
vmd script, so i don't have carry a ton environment variables
around and set them only to override the (current) defaults.

CB> Also, I installed vmd on another linux box (updated OS, x86-32 suse)
CB> and upon make install, the binary gives me the error:
CB> Unsupported architechture.
CB> Must be AIX, HP-UX, IRIX, Linux, SunOS, or TRU64.
CB> ARCH: Undefined variable.

please provide more details: which package did you download
what is your platform exactly (e.g. what is the output of
'uname -a' and 'cat /proc/cpuinfo') ?

does this happen during 'make install' or when calling vmd?

CB> Strangely, the inclided binary (./LINUX/vmd_LINUX) seems to work on
CB> first inspection... However, when I try to display a protein using the
CB> 'NewCartoon' representation, secondary structures are not displayed:
CB> no arrows for b-sheets, no twisty arrows for the helices, just 3-D
CB> spaghetti.

no surprise. the vmd scripts sets a bunch of environment variable that
tell VMD where to find auxiliary binaries and scripts that are required
for this. if you execute vmd_LINUX directly, this does not happen.


CB> Han anyone help me on either of these points? Thank you very much for
CB> your time.
CB> Chris

Axel Kohlmeyer
   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.