[chimerax-users] volume morph

[Karim Rafie]

Hi Tom,
yes that'd be great.
Thanks for pointing out how to review the movie frames.

Best,
Karim

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________________________________
From: Tom Goddard <goddard at sonic.net>
Sent: Tuesday, January 28, 2020 8:14:28 PM
To: Karim Rafie <karim.rafie at umu.se>
Cc: ChimeraX Users Help <chimerax-users at cgl.ucsf.edu>
Subject: Re: [chimerax-users] volume morph

Would be nice if the volume morph showed a slider so you could move through the morph.  I'll add a feature request for that.

But you can replay the morph you created by adding the "model" option to the morph command, for example,

volume morph #1,2 model #3

which avoids creating a new morph which would happen if you rerun your command without the model option.

Tom

On Jan 28, 2020, at 10:33 AM, Karim Rafie <karim.rafie at umu.se<mailto:karim.rafie at umu.se>> wrote:

Hi Elaine,

Thanks a ton. I'll give it a go ASAP.

Best,
Karim

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________________________________
From: Elaine Meng <meng at cgl.ucsf.edu<mailto:meng at cgl.ucsf.edu>>
Sent: Tuesday, January 28, 2020 7:28:14 PM
To: Karim Rafie <karim.rafie at umu.se<mailto:karim.rafie at umu.se>>
Cc: chimerax-users at cgl.ucsf.edu<mailto:chimerax-users at cgl.ucsf.edu> <chimerax-users at cgl.ucsf.edu<mailto:chimerax-users at cgl.ucsf.edu>>
Subject: Re: [chimerax-users] volume morph

Hi Karim,
Yes the morph is added as a new model.  The command both creates the morph and plays it.  However, the default is only 25 frames (playstep 0.04 frames 25) and may finish playing very quickly, so maybe you didn’t notice it.  For example, commands

open emdb:1283
open emdb:1284
volume morph #1,2

…create #3 as the morph and quickly show it.  Could try more frames if you want it to take longer:

close #3; vol all show
volume morph #1,2 playstep 0.01 frames 100

See description of command options:
<http://rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html#morph>

I hope this helps,
Elaine
-----
Elaine C. Meng, Ph.D.
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco

> On Jan 28, 2020, at 10:06 AM, Karim Rafie <karim.rafie at umu.se<mailto:karim.rafie at umu.se>> wrote:
>
> Dear all,
> I would like to create a morph movie between two volumes in ChimeraX, however I am having difficulties with generating it.
> I am using the following command (e.g.) to "create" the morph:
>
> volume morph #1,2 frames 50
>
> After it has completed I get a new volume but I can't review the frames themselves, i.e. the output is a new map. I tried scouring the tutorials and command page but can't find a solution.
>
> I tried it with the ChimeraX Ubuntu 16.04 distribution as well as the generic linux version.
> Any help would be greatly appreciated.
> Best wishes,
> Karim

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