VMD-L Mailing List

From: yp sun (sunyeping_at_yahoo.com.cn)
Date: Mon Dec 17 2012 - 08:52:24 CST

Dear VMD users,
 
I try to use vmd to insert a protein into lipid membrane using the scrpit combine.tcl, and I type the following command:
 
vmd -dispdev text -e combine.tcl
 
I got the following error message:
 
Warning) Detected a mismatch between CUDA runtime and GPU driver
Warning) Check to make sure that GPU drivers are up to date.
Info) No CUDA accelerator devices available.
Info) No joysticks found.  Joystick interface disabled.
Info) Dynamically loaded 69 plugins in directory:
Info) C:/Program Files/University of Illinois/VMD/plugins/WIN32/molfile
1.6
ERROR: Unable to open topology file top_all27_prot_lipid.inp
MOLECULE DESTROYED BY FATAL ERROR!  Use resetpsf to start over.
psfgen) clearing structure, preserving topology and aliases
psfgen) reading structure from psf file membrane.psf
psfgen) psf file does not contain cross-terms
psfgen) reading coordinates from pdb file membrane.pdb
ERROR: Unable to open psf file protein.psf
MOLECULE DESTROYED BY FATAL ERROR!  Use resetpsf to start over.
MOLECULE MISSING!  Use resetpsf to start over.
 
temp
MOLECULE MISSING!  Use resetpsf to start over.
MOLECULE MISSING!  Use resetpsf to start over.
ERROR) Could not read file temp.psf
Unable to load structure file temp.psf
There is no 'top' molecule  in atomselect's 'molId'
can't read "sellip": no such variable
can't read "lseglist": no such variable
-55
41
-51
34
There is no 'top' molecule  in atomselect's 'molId'
MOLECULE MISSING!  Use resetpsf to start over.
MOLECULE MISSING!  Use resetpsf to start over.
Info) VMD for WIN32, version 1.9.1 (February 1, 2012)
Info) Exiting normally.
vmd > Couldn't open psf file temp.psf
 
 
Does these mean that my computer cannot do the inserting job? Is there any resolution for this problem? Thank you!

Yeping Sun
CAS Key Laboratory of Pathogenic Microbiology & Immunology
INSTITUTE OF MICROBIOLOGY CHINESE ACADEMY OF SCIENCES
NO.1 Beichen West Road,Chaoyang District,Beijing 100101,china