VMD-L Mailing List

From: Luis Rosales (ludwig_at_biomedicas.unam.mx)
Date: Tue Nov 23 2004 - 18:52:35 CST

 
Hi all:

A really basic question:
I am setting vmd to work with msms, so I had put on my vmd script

# find where the MSMS executable is located
if ($?MSMSSERVER == "0") then
  setenv MSMSSERVER "/home/arioco/bin/MSMS/msms.i86Linux2.2.5.5"
endif

However, vmd is unable to call msms and I got the following message:

Info) Finished with coordinate file bin/MSMS/1crn.pdb.
Info) Starting MSMS with: '/home/arioco/bin/MSMS/msms.i86Linux2.2.5.5
-no_area -socketPort 1357 &'
Info) Waiting for MSMS server ...
Info) Waiting for MSMS server ...
Info) Waiting for MSMS server ...
Info) Waiting for MSMS server ...
ERROR) Could not connect to MSMS server. Please check that the program
'/home/a
rioco/bin/MSMS/msms.i86Linux2.2.5.5' exists and is executable, or set the
environment variable MSMSSERVER to point to the correct binary.
Info) Could not compute MSMS surface
Info) Done with MSMS surface.

My msms binary is called msms.i86Linux2.2.5.5 and is in the path
/home/arioco/bin/MSMS/ and I could run msms from the command line,

Any ideas about what I am missing???

Thanks,

Luis