Re: [AMBER] Can't load trajectory in coordinate formate from amber in VMD

From: Chetna Tyagi <cheta231.gmail.com>
Date: Wed, 24 Jul 2019 13:21:56 +0200

Dear Xikun,

Please try opening the trajectories by choosing NetCDF option in VMD. Also,
The trajectories still seem to be in a compressed file format ".gz".
Extract them first and then first load the .prmtop file upon which you
should open the trajectory file.

Hope this helps.

Chetna

On Wed, Jul 24, 2019 at 3:36 AM Xikun Liu <xikun.ucsb.edu> wrote:

> Dear Amber and VMD users,
>
> I am following the amber tutorial:
> B2-Section 6 http://ambermd.org/tutorials/basic/tutorial2/section6.htm
> and I downloaded the "TRPcage.prmtop
> <http://ambermd.org/tutorials/basic/tutorial2/files/TRPcage.prmtop> (128
> kb), heat1.nc.gz
> <http://ambermd.org/tutorials/basic/tutorial2/files/heat1.nc.gz> (510 kb),
> heat2.nc.gz <
> http://ambermd.org/tutorials/basic/tutorial2/files/heat2.nc.gz>
> (515
> kb)" listed on the website but I couldn't load the trajectory files by
> choosing AMBER coordinates in VMD. Is there anybody who manages to follow
> the tutorial? Thanks.
>
> Best regards,
> Xikun
> _______________________________________________
> AMBER mailing list
> AMBER.ambermd.org
> http://lists.ambermd.org/mailman/listinfo/amber
> 


-- 
Best wishes
Chetna
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Received on Wed Jul 24 2019 - 05:00:02 PDT
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