[gmx-users] Another problem with Stimulated Annealing

[David van der Spoel]

Monika Sharma wrote:
> Thanks for your reply. So what you meant by it, that the steep option 
> will always be at 0K. and what this gen_temp will corresponds to??  and 
> SA wont have meaning for steep.  Can you please help me in understanding 
> some things?
> 1. md integrator wont be a good option for minimization? since it can 
> take different temperature.
> 2. steep integrator will work on temp 0K only, whatsoever the 
> temperature couple or velocity generation value we provide??
> These seems to be baffling.. what to use first and how to proceed??  I 
> have gone through manual and tutorials, but still seems confused.
> Please do suggest...
they are different. steep goes to first local minimum, MD+SA is better 
at searching. Try reading a textbook, like Leach.
> regards,
> Monika
> David van der Spoel wrote:
> Can't post? Read http://www.gromacs.org/mailing_lists/users.php


-- 
David van der Spoel, Ph.D.
Molec. Biophys. group, Dept. of Cell & Molec. Biol., Uppsala University.
Box 596, 75124 Uppsala, Sweden. Phone:	+46184714205. Fax: +4618511755.
spoel at xray.bmc.uu.se	spoel at gromacs.org   http://folding.bmc.uu.se