[Chimera-users] Mirrored density artefact

Elaine Meng meng at cgl.ucsf.edu
Thu Mar 24 17:23:21 PDT 2016


Hi Kyle,
Apologies, it may be a while before this question can be addressed since our expert in this area (and who implemented vop) is away now and for the next couple of weeks.
Best,
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 Mar 24, 2016, at 3:51 PM, Morris, Kyle <Kyle.Morris at warwick.ac.uk> wrote:
> 
> Dear Chimera dev and community,
> 
> I am using "vop cover” to extract a box of density around a PDB and making the box quite large with the following:
> 
> 	$ vop cover #0 atomBox #1 pad 55
> 
> I have noticed in the extracted density that as I increase the pad size the true density gets duplicated and mirrored on the opposite edge of the cell containing the volume. This seems like strange behaviour to me, is there something wrong or that I am doing wrong?
> 
> Many thanks for your help.
> 
> Best,
> Kyle




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