From: Chris Harrison (
Date: Wed Jul 22 2009 - 16:06:15 CDT

Copy the config file contents (of exactly the config file you used) to the
list so we know what you did.


Chris Harrison, Ph.D.
Theoretical and Computational Biophysics Group
NIH Resource for Macromolecular Modeling and Bioinformatics
Beckman Institute for Advanced Science and Technology
University of Illinois, 405 N. Mathews Ave., Urbana, IL 61801                            Voice: 217-244-1733               Fax: 217-244-6078
On Fri, Jul 17, 2009 at 11:56 AM, Pavel Mironov <>wrote:
> Hello!
> Using VMD I've met some problems. Following your tutorial I have made the
> simulation for ubiqutine 1UBQ.pdb. But when I tried to make the same actions
> with lysozyme molecule 1IEE.pdb (the only changes I made were writing
> correct input files in scripts .pgn and .conf), the only output file I
> obtained after running NAMD is the .log file; there were no .coor, .vel,
> .xsc, .dcd, .coor, .vel, .xsc, .old, .restart.vel.old, .restart.xsc.old
> files. Could you please help me to solve my problem? How can I obtain
> missing files?
> Thank you for an answer!
> Paul.
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