VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Thu Jun 06 2002 - 09:55:07 CDT

Dear Dmitry,
  I have a few questions and suggestions to help narrow down the source
of your problem. Are you running the "mesa" or "opengl" version of VMD?
I also assume you are trying to run VMD 1.7.1, right? In order to see if
this is a graphics problem or a dynamic link library problem, try running
VMD using this command:
  vmd -dispdev text

If you are able to start VMD in the text-only mode (which people often
use for running analysis scripts overnight etc..), then that would indicate
that your problem is graphics related. If not, then its probably a shared
library or runtime system problem.

Try that out and let us know what happens, and we'll proceed from there.

Thanks,
  John Stone
  vmd_at_ks.uiuc.edu

On Thu, Jun 06, 2002 at 12:22:15PM +0300, Dmitry Kovalsky wrote:
> Dear users
> I have encountered a problem. When I used vmd under RH everything was Ok. Now
> I'm using ALT Linux (it is russian localization of Mandrake) and cann't start
> vmd.
> At first it was written "Couldn't get file descriptor to console" but now it
> is fixed and as I know it is problem of tcsh
> But VMD still crashes. it doesn't write anything only
> [dikov_at_violet dikov]$ /usr/local/vmd/bin/vmd
> [1] 2897
> [dikov_at_violet dikov]$
>
> and the terminals start and crashes rapidly
> I have tryied
> dikov_at_violet dikov]$ strace -ff /usr/local/vmd/bin/vmd
> but
>
>
> open("/usr/share/terminfo/x/xterm", O_RDONLY) = 8
> read(8, "\32\1\34\0\35\0\17\0i\1\273\3", 12) = 12
> read(8, "xterm|X11 terminal emulator\0", 28) = 28
> read(8, "\0\1\0\0\1\0\0\0\1\0\0\0\0\1\1\0\0\0\0\0\0\0\1\0\0\0\0"..., 29) = 29
> read(8, "\0", 1) = 1
> read(8, "P\0\10\0\30\0\377\377\377\377\377\377\377\377\377\377\377"..., 30)
> =
> 30
> read(8, "\0\0\4\0\6\0\10\0\31\0\36\0&\0*\0.\0\377\3779\0J\0L\0P"..., 722) =
> 722
> read(8, "\33[Z\0\7\0\r\0\33[%i%p1%d;%p2%dr\0\33[3g\0\33["..., 955) = 955
> read(8, "", 1) = 0
> read(8, "", 10) = 0
> close(8) = 0
> ioctl(1, SNDCTL_TMR_TIMEBASE, {B38400 opost isig icanon echo ...}) = 0
> ioctl(1, SNDCTL_TMR_TIMEBASE, {B38400 opost isig icanon echo ...}) = 0
> ioctl(1, 0x5413, {ws_row=48, ws_col=142, ws_xpixel=0, ws_ypixel=0}) = 0
> ioctl(7, 0x5414, {ws_row=11, ws_col=80, ws_xpixel=739, ws_ypixel=169}) = 0
> rt_sigprocmask(SIG_BLOCK, [CHLD], [], 8) = 0
> fork(PTRACE_ATTACH: Operation not permitted
> Too late?
> ) = 2645
> wait4(2645,
>
> and after this only Ctrl-C helps to exit
> as I can understand strace cann't catch a new process at time
>
> Could any help where is the problem
>
> Sincerely yours,
>
> Dima
>
> Ph.D. Student Dmitry Kovalsky
> Institute of Molecular Biology & Genetics
> 150 Akad. Zabolotnogo Street,
> Kiev-143, 03143
> UKRAINE
>
> E-mail: dikov_at_imbg.org.ua
> Fax: +380 (44) 266-0759
> Tel.: +380 (44) 266-5589 

-- 
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