VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Wed Aug 20 2014 - 16:27:30 CDT

Hi,
  If you're compiling a text-mode VMD build, you would want your
options to look more or less as you have them, but if you want to be
able to use the built-in Tachyon, you'll need to compile it from source.
If not, you can just delete the build option "LIBTACHYON" and that'll
let you get past that.

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Wed, Aug 20, 2014 at 04:17:16PM -0500, Jim Parker wrote:
> Oops, fat fingered the <Send> button.
> A continuing.
>
> inspecting the lib/stride lib/surf and lib/tachyon folders, the only file
> is a README file in each.
> the folder /myhome/tmp/lib/vmd-src
> contains a file vmd.so and none of the *_LINUXAMD64 files I would expect
> to see.
>
> I tried following the Makefile dependencies to understand how these 3
> files were created, but as far as I can see they are just defined in
> VMD_OTHER_EXE and that handle is not used elsewhere.
>
> Any help would be appreciated.
>
> Cheers,
> --Jim Parker
> Department of Physics and Astronomy
> The University of Texas at San Antonio
>
> On Wed, Aug 20, 2014 at 4:09 PM, Jim Parker <[1]jimparker96313_at_gmail.com>
> wrote:
>
> Hello,
> A I am attempting to compile a text-only (no OpenGL) version of VMD for
> use on an HPC cluster.A Basically, I have many TCL scripts that work
> with atomselect methods and would like to have it available to the
> compute nodes (which don't have OpenGL capability).
>
> I was hoping someone could recommend a set of options that would
> generate a text only mode for a LINUXAMD64 computer.
> I saw that there are options provided for aix5&6.text compile modes, so
> I tried those same options with LINUXAMD64
> i.e. ./configure LINUXAMD64 IMD SILENT TCL PTHREADS LIBTACHYON NETCDF
> LP64
>
> But the compilation fails with: undefined references to libtachyon.so...
> Examining these options, I omitted LP64, since it is not listed for any
> of the other LINUX modes and I assumed it was aix-specific.A Also,
> added SHARED since LINUX uses shared libraries
> With those changes, the code compiles without errors (only warnings
> about unused variables), and I get
>
> No resource compiler required on this platform.
>
> which I understand indicates the compilation completed.
> However, make install gives the response
> cp: cannot stat a**./lib/stride/stride_LINUXAMD64a**: No such file or
> directory
> cp: cannot stat a**../lib/surf/surf_LINUXAMD64a**: No such file or
> directory
> cp: cannot stat a**../lib/tachyon/tachyon_LINUXAMD64a**: No such file or
> directory
> Make sure /home/surfer/tmp/bin/vmd-src is in your path.
> VMD installation complete.A Enjoy!
>
> the resulting binary does not execute
> rlwrap: Command not found.
> /myhome/tmp/lib/vmd-src/vmd_LINUX: Command not found.
>
> And inspecting the lib/stride lib/surf and lib/tachyon folders, the only
> file is a README file in each.
> the folder /myhome/tmp/lib/vmd-src
> contains a file vmd.so and none of the *_LINUXAMD64
>
> References
>
> Visible links
> 1. mailto:jimparker96313_at_gmail.com 

-- 
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/