AMBER Archive (2004)

Subject: Re: AMBER: sander tutorial

From: Carlos Simmerling (
Date: Thu Jul 22 2004 - 07:33:08 CDT

the tutorials on the amber web site are up to date and pretty good.
the variables you mention were indeed retired long ago.

Carlos L. Simmerling, Ph.D.
Assistant Professor Phone: (631) 632-1336
Center for Structural Biology Fax: (631) 632-1555
Stony Brook University Web:
Stony Brook, NY 11794-5115 E-mail:

mathew k varghese wrote:

> HI,
> I am new to AMBER.
> Now I am working with the tutorial.
> While using the sander tutorial, I am getting an error message with
> certain input files given in the tutorial itself.
> The error message is
> *variable not in name list *
> When I edited the input files the sander works.
> The variables not included in the $cntrl namelist are
> *init, ndfmin, tauts, npscal, nrun, ntt, *
> In the amber manual these variables are included in the gibbs module.
> Can anybody help?
> I am working with a P4 pc with RedHat9 .
> Is it possible to run amber on a pc?
> *Yahoo! India Careers*
> <*>*:*
> Over 65,000 jobs online
> <*>.
The AMBER Mail Reflector
To post, send mail to
To unsubscribe, send "unsubscribe amber" to