AMBER Archive (2003)

Subject: Re: A problem in opening the file

From: Khanh.Dao_at_iac.uib.no
Date: Tue Apr 15 2003 - 02:19:58 CDT

Thanks for your advise!
Actually, my input files polyAT.inpcrd and polyAT.prmtop have been modified
because I played with different solvating before I made the copy of model! I
created again the right files and ran simulation again. Then it worked! I'm
happy!
I enjoy to work with the help from the community.
Thanks again.

> On Tue, Apr 15, 2003, Khanh.Dao_at_iac.uib.no wrote:
> >
> > I am a new AMBER user! I try the tutorials with AMBER7. When I worked
> with
> > section "Equilibrating and running DNA" in tutorial 1 and I ran the
> sander
> > program in step one,I did not get the output file min_ntr.restrt appeared
> > in my work directory. Therefore I could not go further to step two
> because
> > I got the message " Error on open the file min_ntr.restrt". How can I
> > resolve this problem ?
>
> There are two likely causes of a problem like this:
>
> 1. You made a mistake in calling sander: what exactly were the arguments
> that you passed to the program?
>
> 2. Sander didn't like your input for the first run, and quit for some reason
> before writing out the min_ntr.restrt file. Have you examined the output
> from the first run? Does it appear to have terminated normally?
>
> ..good luck...dac
>
> --
>
> ==================================================================
> David A. Case | e-mail: case_at_scripps.edu
> Dept. of Molecular Biology, TPC15 | fax: +1-858-784-8896
> The Scripps Research Institute | phone: +1-858-784-9768
> 10550 N. Torrey Pines Rd. | home page:
> La Jolla CA 92037 USA | http://www.scripps.edu/case
> ==================================================================
>
>