VMD-L Mailing List

From: B. Bennion (bbennion_at_u.washington.edu)
Date: Fri Oct 18 2002 - 18:13:43 CDT

Hi Sichun,

Are you using the latest amber version(7). If so, vmd won't be able
to
recognize the new prm and crd files.

I am working on the plugins but have many issues to resolve. The biggest problem is distinguishing between
restart CRD files and CRD files that describe whole trajectory. So far
only %50 of the amber 7 files I have to test with actually work with my
plugins at the moment.

If you can send me a copy of your prmtop and prmcrd files I would greatly
appreciate it.

Thanks
Brian

On Fri, 18 Oct 2002, Sichun Yang wrote:

> Date: Fri, 18 Oct 2002 14:17:46 -0700 (PDT)
> From: Sichun Yang <syang_at_physics.ucsd.edu>
> To: vmd-l_at_ks.uiuc.edu
> Subject: question on prmtop & prmcrd from leap (amber)
>
> Dear VMDusers:
>
> I have deleted 2 N-terminal residues
> and generate the prmtop and prmcrd by leap.
> then visulize it by VMD, it seems it is NOT well connected.
> Any suggestion?
>
> Thank you!
> Sichun
>
>
>

Graduate Research Assistant
Dep. Medicinal Chemistry, University of Washington
Tel# (206)616-2779
BOX 357610 Seattle WA 98195

email--bbennion_at_u.washington.edu
web page--http://students.washington.edu/bbennion