AMBER Archive (2002)

Subject: Re: AMBER7 and Movie

From: Y Fang (fang_at_chem.iupui.edu)
Date: Mon Jul 22 2002 - 15:58:23 CDT

Thanks for all replys.

Setting OldPrmtopFormat was worked in Moilview10 when I just calcualt
the pure ligand without water. But it's unworked for the salvated system
even a small system ( 727 waters with 34 atoms ligand ). The latter
situation gave me a very ugly movie...a lot of confused line.

Can Moilview10.1 solve it?

Best.

Ya-Yin

    

On Mon, 22 Jul 2002, Carlos Simmerling wrote:

> I apologize for the delay in replying to this...
>
> MOIL-View version 10 should handle AMBER7 movies
> without a problem. Please let me know what the problem
> is. The program does not have a problem reading AMBER7
> prmtop files (at least not as far as I know).
>
> Version 10.0 was not able to read AMBER7 restart files for
> very large systems, this has been fixed in version 10.1 that is now
> on the web site: http://comp.chem.sunysb.edu/mlv.html.
>
> As a side note, we have an OpenGL based version underway
> now (developed for Linux). We hope to release it later in the summer.
>
> Carlos
>
> ===================================================================
> Carlos L. Simmerling, Ph.D.
> Assistant Professor Phone: (631) 632-1336
> Center for Structural Biology Fax: (631) 632-1555
> Stony Brook University Web: http://comp.chem.sunysb.edu/carlos
> Stony Brook, NY 11794-5115 E-mail: carlos.simmerling_at_stonybrook.edu
> ===================================================================
>
>
> ----- Original Message -----
> From: "Y Fang" <fang_at_chem.iupui.edu>
> To: <amber_at_heimdal.compchem.ucsf.edu>
> Sent: Friday, July 19, 2002 5:03 PM
> Subject: AMBER7 and Movie
>
>
> > Hello, Amber users:
> >
> > I am try to look at the movie of the trajectory obtained from AMBER7.
> > I found that the format of prmtop file has been changed from AMBER6 to
> > AMBER7, no matter moil-view9 or moil-view10, they all can't show the
> > movie. Is there someone can help me?
> >
> > Thanks.
> >
> > Ya-Yin
> >
> >
>