[Chimera-users] crop a map via commandline

Edoardo D'Imprima eddimpri at biophys.mpg.de
Mon Oct 9 23:55:15 PDT 2017


Thank you very much! This was exactly what I needed.

Edoardo
---------------------------------------------------
Edoardo D'Imprima
PhD Student
Max Planck Institute of Biophysics
Structural Biology Department
Max-von-Laue Straße 3
60438 Frankfurt am Main
Germany

Tel: +49 (0) 69 6303 3015



> On 09 Oct 2017, at 19:16, Elaine Meng <meng at cgl.ucsf.edu> wrote:
> 
> Hi Edoardo,
> The “region” option of the “volume” command is the same as setting region min and max in the Region bounds section of the GUI.
> <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/volume.html#dimensions>
> 
> For example, if I have a map #3, then command:
> 
> vol #3 region 10,10,10,20,20,20
> 
> is the same as GUI:
> 
> Region min max step  x[10 20 1 ] y [10 20 1 ] z [10 20 1 ]
> 
> That adjusts the display.  If you want to save this region to a file, you could instead use the “save” option,  for example, a command something like:
> 
> vol #3 save /Users/meng/Desktop/test.mrc saveRegion 10,10,10,20,20,20
> 
> <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/volume.html#output>
> 
> I hope this helps,
> Elaine
> ----------
> Elaine C. Meng, Ph.D. 
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
> 
> 
>> On Oct 9, 2017, at 5:11 AM, Edoardo D'Imprima <eddimpri at biophys.mpg.de> wrote:
>> 
>> Dear Chimera users,
>> is there an equivalent of Volume viewer/Features/Region bounds from the GUI to precisely crop several maps via command line? I tried a combination of volume region and vop zone subregion but it doesn’t really do what I would like to obtain.
>> Many thanks in advance,
>> Edoardo
> 




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