Re: [PyMOL] Accessing vertex normals from surface representation within PyMOL session

[Yang Su <su...@cr...>]

Hi Thomas,

I posted a somewhat related question here before:
https://sourceforge.net/p/pymol/mailman/message/36747359/

Basically, the idea is to get normals and tangents for the cartoon
representation so that one can show multiple overlapping peptides on the
structure. See the example image below. The method I posted in that
question relies on calculating these normal and tangent values by
duplicating pymol's code, which is an ugly hack with compatibility and
performance issues. It would be nice if pymol offers an official way to
show overlapping peptides.

[image: Overlapping_peptides.png]

Best,
Yang



On Tue, Feb 25, 2020 at 6:07 AM Thomas Holder <tho...@sc...>
wrote:

> Hi Jared,
>
> Apologies for the late reply. Unfortunately such an API doesn't exist. I
> agree that it would be very useful, I will file a feature request.
>
> Cheers,
>   Thomas
>
> > On Feb 14, 2020, at 9:20 PM, Jared Sampson <jar...@co...>
> wrote:
> >
> > Hi all -
> >
> > Is it possible to access surface triangle mesh position and normal
> values on a per-selection basis within a PyMOL session?  I know it's
> possible to get these by writing out and parsing .obj files, but to do this
> for an entire protein surface in a per-atom/residue fashion would be
> inefficient.  I imagine there must be a function to access this similar to
> "dump" for isosurfaces, but haven't been able to find it.
> >
> > Thanks a lot!
> >
> > Cheers,
> > Jared
> >
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> --
> Thomas Holder
> PyMOL Principal Developer
> Schrödinger, Inc.
>
>
>
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