AMBER Archive (2002)

Subject: Re: help on VMD movie

From: Francesca Mocci (francy_at_mvcch3.unica.it)
Date: Wed Nov 13 2002 - 08:28:06 CST

Zhang Jian wrote:
>
> Dear all,
>
> Has any one had experience on generating movies in VMD
> from AMBER7.0 parm and crd files?
>
> I have a AMBER7.0 parm file (p.wat.top) and a
> trajectory file(p.wat.traj), after loading it into
> VMD, nothing happened. So I change the AMBER7.0 parm
> file into old format using new2oldparm, then get a
> movie, it is ok.
>
> My problem is when I strip the WATER out of trajectory
> file, and combine it with the corresponding parm file
> in vacuum (p.vac.top), I got a strange movie, only the
> first frame is ok, the following frames are very
> strange. why? Does anyone have some ideas?
>

Have you checked whether the box dimensions are present (or absent)
in both p.vac.top and in the trajectory file?
]

Francesca

> Thank you very much!
>
> Best Regards,
> Jian Zhang
>
> =====
> Jian Zhang, Dr
> Institute for Biophysics
> Nanjing University
> 22 Hankou Road, Nanjing 210093
> P. R. China
> Tel: 86-25-3594476
> Fax: 86-25-3595535
>
> __________________________________________________
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> http://launch.yahoo.com/u2 

-- 
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Francesca Mocci
Dipartimento di Scienze Chimiche
http://www.unica.it/~segscchi
Universita' di Cagliari
e-mail: francy_at_mvcch3.unica.it
Phone: +39 070 6754362
Fax:   +39 070 6754388

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