[Chimera-users] Load AMBER parm/traj from command line.

[ros]

This is perfect!

Thank you!

Have a good day,

Rodrigo.

On Tue, May 19, 2015 at 11:24 AM, Elaine Meng <meng at cgl.ucsf.edu> wrote:

> Hi Rodrigo,
> Yes, you can specify input to MD Movie (trajectory viewer) in the Chimera
> startup command by using a metafile.  A metafile is simply a text file with
> the same information as you would have typed into the MD Movie input
> dialog.  The different trajectory formats have different numbers of things
> you need to input, as you can see from looking at the MD Movie input
> dialog, but here’s one example of a metafile for an AMBER trajectory:
>
> <
> http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/movie/movie.html#metafile
> >
>
> First you would need to figure out how to start Chimera from the system
> command line (depends on the system):
> <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/startup.html>
>
> Then you would specify the metafile input in that command line with prefix
> “md:” or “movie:”.  For example, if just typing "chimera" starts chimera on
> your system and you had named your metafile “myfile.txt” it would be
> something like:
>
> system prompt> chimera md:myfile.txt
>
> Prefixes for different input file types:
> <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/filetypes.html#molstruct
> >
>
> I hope this helps,
> Elaine
> ----------
> Elaine C. Meng, Ph.D.
> UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
>
> > On May 19, 2015, at 10:10 AM, ros <rodrigogalindo at gmail.com> wrote:
> >
> > Hello!
> > Is it possible to start up chimera and have it load an AMBER topology
> and trajectory file?
> > For example, in Linux, you can start VMD with:
> >
> > vmd -parm7 name.prmtop -netcdf traj.nc
> >
> > And will load the topology with the corresponding trajectory frames.
> > In chimera we do that using the 'Get Ensemble info' window in the MD
> movie tools.  Is it possible to do it in a single line?
> > Thank you!
> > Rodrigo.
>
>
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