VMD-L Mailing List

From: Sabuj Pattanayek (sabuj.pattanayek_at_Vanderbilt.Edu)
Date: Wed Mar 09 2005 - 12:53:36 CST

John Stone wrote:

>Sabuj,
> If running the script opens and closes an xterm immediately, we need
>to figure out why. VMD will not run correctly if you start the binary
>manually. What happens when you run VMD like this:
> vmd -dispdev text
>
>
vmd -dispdev text
Info) VMD for LINUX, version 1.8.3 (February 15, 2005)
Info) http://www.ks.uiuc.edu/Research/vmd/
Info) Email questions and bug reports to vmd_at_ks.uiuc.edu
Info) Please include this reference in published work using VMD:
Info) Humphrey, W., Dalke, A. and Schulten, K., `VMD - Visual
Info) Molecular Dynamics', J. Molec. Graphics 1996, 14.1, 33-38.
Info) -------------------------------------------------------------
Info) Multithreading available, 2 CPUs detected.
vmd > quit
Info) VMD for LINUX, version 1.8.3 (February 15, 2005)
Info) Exiting normally.

..no error messages there

ls -l /bin/csh
lrwxrwxrwx 1 root root 9 Jun 23 2004 /bin/csh -> /bin/tcsh
tcsh --version
tcsh 6.12.00 (Astron) 2002-07-23 (i386-intel-linux) options
8b,nls,dl,al,rh,color,filec

>Do you have /bin/csh installed on your machine?
>
> John Stone
> vmd_at_ks.uiuc.edu
>
>On Wed, Mar 09, 2005 at 12:41:13PM -0600, Sabuj Pattanayek wrote:
>
>
>>Hi,
>>
>>I get this error when I start vmd 1.8.3 (you have to run
>>/path/to/vmd/vmd_LINUX since just running the vmd script opens a window
>>and it closes immediately):
>>
>>ERROR) Tcl startup error: Can't find a usable init.tcl in the following
>>directories:
>>ERROR) /usr/local/lib/tcl8.4 /usr/local/sbin/lib/tcl8.4
>>/usr/local/lib/tcl8.4 /usr/local/sbin/library /usr/local/library
>>/usr/local/tcl8.4.1/library /usr/tcl8.4.1/library /usr/local/lib/tcl8.4
>>ERROR)
>>ERROR)
>>ERROR)
>>ERROR) This probably means that Tcl wasn't installed properly.
>>ERROR) Tk startup error: invalid command name "tcl_findLibrary"
>>ERROR) VMDDIR undefined, startup failure likely.
>>ERROR) Could not read the vmd initialization file -
>>ERROR) source {/usr/local/lib/vmd/scripts/vmd/vmdinit.tcl}
>>ERROR) couldn't read file "/usr/local/lib/vmd/scripts/vmd/vmdinit.tcl":
>>no such file or directory
>>ERROR) The VMDDIR environment variable is set by the startup
>>ERROR) script and should point to the top of the VMD hierarchy.
>>ERROR) VMD will continue with limited functionality.
>>ERROR) invalid command name "vmd_load_extension_packages"
>>
>>I installed it according to the instructions (remove old vmd
>>installtion; modify configure, run ./configure, and cd src; make
>>install). Just to make sure there isn't anything wrong with the system I
>>did a fresh install of vmd 1.8.2 and it works. The vmd 1.8.3 script has:
>>
>>set defaultvmddir=/usr/local/sbin/vmd
>>set vmdbasename=vmd
>>
>>slocate init.tcl
>>
>>/usr/lib/tcl8.4/init.tcl
>>/usr/local/sbin/vmd/scripts/vmd/vmdinit.tcl
>>/usr/local/sbin/vmd/scripts/tcl8.4/init.tcl
>>/usr/local/sbin/pymol/ext/lib/tcl8.4/init.tcl
>>/usr/local/sbin/chimera1.2065/lib/tcl8.4/init.tcl
>>/usr/local/sbin/ac3dlx/lib/tcl8.4/init.tcl
>>/root/vmd-1.8.2/lib/scripts/tcl8.4/init.tcl
>>/root/vmd-1.8.2/scripts/vmd/vmdinit.tcl
>>/root/vmd-1.8.3/lib/scripts/tcl8.4/init.tcl
>>/root/vmd-1.8.3/scripts/vmd/vmdinit.tcl
>>
>>Thanks,
>>Sabuj Pattanayek
>>
>>
>
>
>