[chimerax-users] Save ribbons and surfaces with minimal amount of vertices/faces

[Sarah Piper]

Thank Elaine, that's a very smart idea and very helpful indeed! Thanks so
much for your help and your quick reply!

Sarah
.........................
Sarah Piper, PhD
Postdoctoral Research Fellow
Drug Discovery Biology
Monash Institute of Pharmaceutical Sciences, Monash University 399 Royal
Parade, Parkville, 3052 VIC, Australia

Phone: +61 3 9903 9239
Email: sarah.piper at monash.edu
LinkedIn: www.linkedin.com/in/sjpiper89/


On Tue, 14 Dec 2021 at 04:18, Elaine Meng <meng at cgl.ucsf.edu> wrote:

> Hi Sarah,
> For the skeleton, couldn't you use the alpha-carbons instead of a ribbon?
> Or N, CA, C?
>
> E.g. ChimeraX commands:
>
> hide
> hide ribbons
> show @ca
> - OR -
> show @n,ca,c
>
> For reducing vertices in ChimeraX, see commands "graphics quality" and
> "graphics triangles":
> <https://rbvi.ucsf.edu/chimerax/docs/user/commands/graphics.html>
>
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
> > On Dec 12, 2021, at 9:03 AM, Elaine Meng via ChimeraX-users <
> chimerax-users at cgl.ucsf.edu> wrote:
> >
> > Hi Sarah,
> > For the last part of your question, you can set the camera position with
> the "camera" option of the "view matrix" command, see:
> >
> > <https://rbvi.ucsf.edu/chimerax/docs/user/commands/view.html#matrix>
> >
> > For example:  view matrix camera 1,0,0,0,0,1,0,0,0,0,1,0
> >
> > I'm not familiar with the Pymol command or why it has so many numbers in
> it, so the above may not do the same thing as your example.
> >
> > I hope this helps,
> > Elaine
> > -----
> > Elaine C. Meng, Ph.D.
> > UCSF Chimera(X) team
> > Department of Pharmaceutical Chemistry
> > University of California, San Francisco
> >
> >> On Dec 12, 2021, at 2:35 AM, Sarah Piper via ChimeraX-users <
> chimerax-users at cgl.ucsf.edu> wrote:
> >>
> >> Hi ChimeraX team and others,
> >> I got a bit of an unusual question and am interested to see whether it
> is possible!
> >>
> >> I am trying to use a short helix in ribbon style from ChimeraX into
> Blender, and use it to create a 'skeleton' for animations. For this, it
> would be most useful to have as few vertices as possible for the helix
> (basically only the 'invisible' coordinates themselves as 'line', instead
> of having it as a 3D view/thick helix.
> >> When I export a helix even with a very thin ribbon style through the
> command line (e.g. width and thickness to 0.1), this is unfortunately still
> too thick and creates too many vertices/faces. Setting these values to 0
> gives errors.
> >>
> >> I have looked at the ribbon style editor in Chimera as well, and
> unfortunately the minimum settings are 0.05. Would it be possible to
> somehow set any of these parameters to 0 and save this as a file format
> suitable for 3D softwares (e.g. .glb)? Would it work through a python
> script potentially? (I'm not familiar with python in chimera yet but happy
> to learn more about this).
> >> And if so, would this be also applicable for surfaces, to reduce the
> numbers of vertices/faces that are exported?
> >>
> >> On another note, I was wondering whether it would be possible to set
> the chimaera scene 'world origin' to a particular coordinate set; I think
> in Pymol this is possible with resetting the camera view:
> >>
> >> cmd.set_view([ 1.0,   0.0,   0.0,
> >>               0.0,   1.0,   0.0,
> >>               0.0,   0.0,   1.0,
> >>               0.0,   0.0,   0.0,
> >>               0.0,   0.0,   0.0,
> >>              40.0, 100.0, -20.0])
> >>
> >>
> >> Sorry for these unusual question but looking forward to hearing back
> from anyone who might have any suggestions!
> >> Cheers,
> >> Sarah
>
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://plato.cgl.ucsf.edu/pipermail/chimerax-users/attachments/20211214/1151c256/attachment.html>