From: Axel Kohlmeyer (
Date: Wed Jul 25 2012 - 03:20:26 CDT

On Wed, Jul 25, 2012 at 9:04 AM, oguz gurbulak <> wrote:
> Dear John,
> Thanks for your reply and interest. I did a lot of trial. I think there are
> some shortcomings related to the installation. Could you please share the
> name of libraries which are essential and suitable for VMD 1.9.1 and your
> installation procedure for VMD ? I will again try to install VMD to Centos
> linux cluster. So your information will be very useful for me.

VMD is in essence a desktop application, and thus requires
a desktop-like runtime envionment. also, the VMD binaries are
set up to be installed on a very large variety of machines and
linux distributions, but that precludes any automated dependency
mechanism, since those are distribution specific and often
even change between individual releases of linux distributions.

what you are asking for is nothing VMD specific
but something that requires rather basic linux
system administration skills. this is out of the
scope of this mailing list. if you don't have those
skills, my suggestion is to identify somebody
close to you, that does have them. at the very
least the person that has set up and installed
the cluster you are talking about should have
these skills (or you are in much deeper trouble
than just being able to install VMD).

to at least give you one piece of immediate
practical help, you can find the names of the
required shared libraries through the "ldd"
command. e.g.

[akohlmey_at_zero ~]$ ldd /usr/local/lib/vmd/vmd_LINUX => (0x00f82000) => /usr/lib/ (0x0399d000) => /usr/lib/ (0x02906000) => not found => /usr/lib/ (0x00a13000) => /usr/lib/ (0x00dee000) => /lib/ (0x00bde000) => /usr/lib/ (0x0026f000) => /usr/lib/ (0x00657000) => /lib/ (0x00bfb000) => /usr/lib/ (0x02acd000) => /lib/ (0x00c0d000) => /lib/ (0x00c50000) => /lib/ (0x00a52000) => /usr/lib/ (0x00466000) => /usr/lib/ (0x00a26000) => /usr/lib/ (0x0271d000) => /usr/lib/ (0x0266d000) => /usr/lib/ (0x02771000)
        /lib/ (0x00a31000) => /usr/lib/ (0x00dce000) => /usr/lib/ (0x05f88000) => /usr/lib/ (0x003d2000) => /usr/lib/ (0x026cd000) => /lib/ (0x00c02000) => /usr/lib/ (0x00dc9000) => /lib/ (0x003a8000)

wherever there is a "not found" there may be a problem.
please note, that is bundled with VMD, so
that specific "not found" can be ignored.


> Best regards.

Dr. Axel Kohlmeyer
International Centre for Theoretical Physics, Trieste. Italy.