[gmx-users] trajectory movie

[David]

On Fri, 2005-04-01 at 09:54 -0800, Nancy Deng wrote:
> Dear All,
>  
> I'm just wondering whether anyone could suggest me some (free) tools
> to make a movie from the MD trajectory file. Then the movie (in .avi
> format etc) could be inserted into power point for presentation.
>  
VMD,
pymol

> Appreciate your any information.
>  
> nancy
>         ----- Original Message ----- 
>         From: Nancy Deng 
>         To: Discussion list for GROMACS users 
>         Sent: Thursday, March 31, 2005 3:24 PM
>         Subject: Re: [gmx-users] g_gyrate
>         
>         
>         Dear All,
>          
>         I have done 2ns MD with gmx_FF and was trying to calculate the
>         radius of gyration of the entire protein by: g_gyrate -s
>         2ns.tpr -f 2ns.trr -o 2ns.xvg
>          
>         The program stopped at 560ps with the "fatal error: Can not
>         determine precision of trn file, quit!"
>          
>         Does any one please have any idear what really happend here???
>         what's the trn file?
>          
>         Thanks,
>          
>         nancy
>         
>         
>                 ----- Original Message ----- 
>                 From: narender maan 
>                 To: gmx-users at gromacs.org 
>                 Sent: Thursday, March 24, 2005 10:54 AM
>                 Subject: [gmx-users] g_anaeig
>                 
>                 
>                 Dear gmx-users
>                 I am doing ED of my simulation and while using
>                 g_anaeig the file (eigrmsf.xvg) i am getting for rmsf
>                 (by using -rmsf option) is for all the atoms in the
>                 protein. So i was wondering if there's anyway to
>                 calculate averages for each residue in
>                 eigrmsf.xvg instead of atoms (like the way it is in
>                 g_rmsf by using the option of -res)  
>                 thank you
>                 NSM
>                 
>                 
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>         
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-- 
David.
________________________________________________________________________
David van der Spoel, PhD, Assoc. Prof., Molecular Biophysics group,
Dept. of Cell and Molecular Biology, Uppsala University.
Husargatan 3, Box 596,          75124 Uppsala, Sweden
phone:  46 18 471 4205          fax: 46 18 511 755
spoel at xray.bmc.uu.se    spoel at gromacs.org   http://xray.bmc.uu.se/~spoel
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