[Chimera-users] euler angle

Elaine Meng meng at cgl.ucsf.edu
Fri Apr 19 16:16:05 PDT 2013


Hi Jim,
I don't know of a way to output Euler angles, but you can save the transformation matrix of a model to a file using the command "matrixget" and later apply the saved matrix using the command "matrixset."  
<http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/matrixset.html>

As mentioned in that "saving after fitting" link I sent before, another possibility is to just save a Chimera session.  It won't help to save the MRC file; if it's not resampled you would just be saving another copy of your original map.
Elaine

On Apr 19, 2013, at 2:16 PM, Jingchuan Sun wrote:

> Hi Elaine,
> Could I obtain euler angles after I rotate a single map to some special orientation or save it as a MRC file (not in the situation of fitting one map to another)?
> Thanks!
> Jim
> 
> 
> On Fri, Apr 19, 2013 at 4:14 PM, Elaine Meng <meng at cgl.ucsf.edu> wrote:
> Hi Jim,
> Simply saving a map to a file after fitting will not save its new orientation, because the map file formats  do not include rotation/translation information. However, you can create a new map on the grid of another map by resampling.  For details, please see this section on "saving after fitting":
> 
> <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/savemodel.html#afterfitting>
> 
> There is a "Transform Coordinates" tool (in menu under Tools... Movement) with which you can apply Euler angles if you already knew them, but the information above is probably more relevant to your situation.
> 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 Apr 19, 2013, at 12:21 PM, Jingchuan Sun wrote:
> 
> >
> > Hi,
> > After I rotate a volume to a specific orientation, and "save map as" in "volume viewer", the saved volume are still in the original orientation. Could I save it in the new orientation.
> >
> > If I could display the current euler angles, I can rotate it in other software. But how could I display euler angle after rotation?
> > Thanks!
> > Jim
> 
> 
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