[chimerax-users] create mask from "shapes"

[Roberto Marabini]

Thanks for the information Elaine. This will be very useful.

     Roberto

On Fri, Jul 23, 2021 at 5:42 PM Elaine Meng <meng at cgl.ucsf.edu> wrote:

> Hi Roberto,
> Yes, you can mask with a shape.  The "shape" command creates a surface
> model, and then you can use any surface model in the "volume mask" command.
>
> <https://rbvi.ucsf.edu/chimerax/docs/user/commands/shape.html>
> <https://rbvi.ucsf.edu/chimerax/docs/user/commands/volume.html#mask>
>
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
> > On Jul 23, 2021, at 1:25 AM, Roberto Marabini via ChimeraX-users <
> chimerax-users at cgl.ucsf.edu> wrote:
> >
> > Hi,
> >     It is possible to create a mask from a shape?. For example from the
> result of  "shape icosahedron".
> >
> >     If the command does not exist I guess I may create it as follows
> >
> > * the input would be the 3D map to be masked and the shape to be used as
> mask
> > * request all the (varray, tarray) from the shape.
> > * from varray,tarray build the  triangles that define the surface of the
> shape
> > * for each triangle create the normal vector
> > * multiply each normal vector by the position of each voxel (dot product)
> > * keep those voxels that have negative dot products for all the
> triangles.
> >
> >   thanks for the help
>
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://plato.cgl.ucsf.edu/pipermail/chimerax-users/attachments/20210727/a7c73f27/attachment.html>