Thanks for the reply. Actually, I already tried the script you suggest in
last mail.
parm file.prmtop
trajin file.mdcrd
autoimage
trajout file.trj
But the .trj file I get by doing so is same as .mdcrd file it's just like
renaming the trajectory file. And when I use this .trj file for curves+ and
canion tool for base pair parameter and and ion distribution calculation,
the tool does not take this .trj file as input.
So the above method to get .trj trajectory file did not help.
Once again thank you for your reply.
*Atul Kuamr jaiswal*
Research Scholar
School of Computational and Integrative Sciences
Centre for Computational Biology and Bioinformatics (CCBB)
JNU,New Delhi
India.
On Fri, Jun 15, 2018 at 6:46 PM, emanuele falbo <falbo.emanuele.gmail.com>
wrote:
> Dear,
>
> Create a file ptraj.in with following options :
>
> trajin file.mdcrd # the name of the trajectory
> image center
> trajout ptraj.out # the name of the output
>
> then from the terminal run :
>
> $AMBERHOME/bin/cpptraj file.prmtop ptraj.in
>
> you will be getting your proccesed output, of you which you can watch the
> trajectory by means of visualization programs such as VMD ...
>
>
> Best Regards,
> Emanuele
>
>
>
> 2018-06-15 14:02 GMT+01:00 ATUL KUMAR <atul44_sit.jnu.ac.in>:
>
> > Dear amber users,
> > I want to convert my amber trajectory (md1.mdcrd) to .trj trajectory
> > format. Can anyone help me with that?
> > Your help is highly appreciated.
> >
> > *Atul Kuamr jaiswal*
> > Research Scholar
> > School of Computational and Integrative Sciences
> > Centre for Computational Biology and Bioinformatics (CCBB)
> > JNU,New Delhi
> > India.
> > _______________________________________________
> > AMBER mailing list
> > AMBER.ambermd.org
> > http://lists.ambermd.org/mailman/listinfo/amber
> >
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Received on Fri Jun 15 2018 - 22:30:02 PDT
