[Chimera-users] Center of model/volume shifts

Preeti Gipson gipsonpreeti at gmail.com
Wed Mar 23 13:34:50 PDT 2016


Hi Elaine,

Thanks for your reply. I have already tried all these options before
sending it on and none of them worked.

It's a deleterious effect considering when one has finally done the work of
fitting and saved a session with multiple files.

Chimera version 1.10.2 (build 40686). (BTW if its useful info, I am an
advanced chimera user).

Thanks,
Preeti

On Wed, Mar 23, 2016 at 1:12 PM, Elaine Meng <meng at cgl.ucsf.edu> wrote:

> Hi Preeti,
> It might not be a bug if the models were somehow moved separately.
> Similar to my previous response on chimera-users to a slightly different
> question, it may be possible to bring them back into register by by  (A)
> copying the transformation of the original map to the filtered map, e.g.
> command:
>
> matrixcopy #N #M
>
> … where N is the model number of the original map and M is the model
> number of the filtered map (see model numbers by showing the Model Panel
> from the Favorites menu).
>
> or (B) by resetting all model positions, e.g. command:
>
> reset
>
> If neither of those work, it would be helpful if you would report (to the
> chimera-bugs email address) which version of Chimera you are using (e.g.
> from the “version” command) and what series of steps can be used to
> reproduce the problem.
> Thanks,
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
>
> Begin forwarded message:
>
> *From: *Preeti Gipson <gipsonpreeti at gmail.com>
> *Subject: **Center of model/volume shifts*
> *Date: *March 22, 2016 at 5:39:36 PM PDT
> *To: *chimera-bugs at cgl.ucsf.edu
>
> Hi,
> I notice an error in recalling the position/center of the volume map
> (please see image).
>
> If I apply a low pass filter/mask etc and open the volume it does not
> overlay the current map. I never came across this issue with the same
> operations. I have tried restarting session, chimera & even updating.
>
> It will be great to have your suggestions to fix this issue, as you can
> imagine. It basically means redoing an entire session, especially if pdb
> structures have been fit in the model.
>
> Thanks, look forward to possible solutions.
>
> Thanks,
> Preeti
> --
> -------------------------------------------------------
> Preeti Gipson
> Postdoctoral Associate
> Howard Hughes Medical Institute
> Dept. of Molecular and Cellular Physiology
> Stanford University, CA
>
>
>
>
>
>


-- 

-------------------------------------------------------

Preeti Gipson

Postdoctoral Associate

Howard Hughes Medical Institute

Dept. of Molecular and Cellular Physiology

Stanford University, CA
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