[Chimera-users] 2drms

Eric Pettersen pett at cgl.ucsf.edu
Wed Apr 8 10:39:14 PDT 2009

For (1) there really isn't any output option, other than a screen grab.


                         Eric Pettersen
                         UCSF Computer Graphics Lab

On Apr 8, 2009, at 8:01 AM, Elaine Meng wrote:

> Hi Bala,
> For (2):  there is no way to tell Chimera to save the image for only
> part of what is shown.  Instead you need to adjust the view so that
> the window contains the same thing as you want in the image.  Then,
> with File... Save Image you can specify as many or as few pixels as
> desired (the image can be at higher, lower, or same resolution as the
> Chimera window).
> If you want to specify certain pixel dimensions of the Chimera window,
> use the "windowsize" command (command "help windowsize" will show its
> manual page).
> I know it is common to have one figure that is zoomed out and another
> that is a closeup in the same rotational orientation.  You can save
> positions with the "savepos" command and restore them with the "reset"
> command.  If you prefer not to use the mouse to zoom (scale) or
> translate when creating these positions because it is easy to
> accidentally change the rotation, you can use the "scale" and "move"
> commands instead.
> Some of the image tutorials include saving and restoring positions.
> These are for version 1.4 (current daily build):
> <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/tutorials/frameimages.html
> <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/tutorials/convergent.html
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.                          meng at cgl.ucsf.edu
> UCSF Computer Graphics Lab and Babbitt Lab
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>                      http://www.cgl.ucsf.edu/home/meng/index.html
> On Apr 8, 2009, at 3:49 AM, Bala subramanian wrote:
>> Friends,
>> Kindly help me with the following queries.
>> 1) How to output the 2drms created for a md. trajectory using MD
>> movie tool.
>> 2) Is there any way to select a square box of a particular length
>> around the molecule and save the image for publication with the
>> desired resolution. I have seen in the chimera archieve that window
>> size can be adjusted. I am not sure if this is the right way to get
>> my job done.
>> Thanks,
>> Bala
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