Begin forwarded message:
From: Scott Classen <clas...@berkeley.edu>
Date: March 10, 2004 4:20:53 PM PST
To: Warren DeLano <war...@delanoscientific.com>
Cc: pymol-users@lists.sourceforge.net
Subject: Is exporting CGOs vertices possible?
Hello Fellow PyMOLers,
I am interested in using another program (Blender) to do some more
complicated animations/rendering of molecules. Unfortunately Blender
does not import very many types of files. I have been able to use
Gerard Kleywegts MOLEMAN2 to convert my PDB to a VRML1 file and import
that into Blender, but this is very limited in its abilities.
I would love to be able to get the beautiful cartoons, ribbons,
sticks, and other shapes from PyMOL and then import them into Blender.
Is there a way to get a file from PyMOL that contains all the vertices
that construct objects. i.e the vertices that describe a ribbon
representation of my protein.
I understand that PyMOL generates CGOs that it feeds to the internal
ray-tracer. Can PyMOL write out these vertices to a file instead? I
would then have to write a python script or something that would parse
the PyMOL vertices into a file that is importable into Blender (that's
a whole other can of worms).
Thanks,
Scott
Hello PyMOLers,
I also think it is important to know which vertices are connected to
each other in order to form the proper faces. I'm looking into the
Blender API a bit more and it looks like it needs the vertex x,y,z
coordinates and the "face data" in order to connect the vertices in a
meaningful way. These are the two entries I think are important.
Vert(x=0, y=0, z=0)
Get a new vertex object.
Parameters:
x - The x coordinate of the vertex.
(type=float)
y - The y coordinate of the vertex.
(type=float)
z - The z coordinate of the vertex.
(type=float)
Returns:
A new NMVert object.
(type=NMVert)
Face(vertexList=None)
Get a new face object.
Parameters:
vertexList - A list of up to 4 NMVerts (mesh vertex objects).
(type=list)
Returns:
A new NMFace object.
(type=NMFace)
I think it would be sufficient to have a txt file that looks like this
with the vertex coord followed by a list of the vertices that make up
relevent faces.
xyz
xyz
xyz
xyz
xyz
abcd
abcd
abcd
abcd
abcd
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Scott Classen, Ph.D.
ACS Postdoctoral Fellow
Department of Molecular & Cell Biology
University of California, Berkeley
237 Hildebrand Hall #3206
Berkeley, CA 94720-3206
LAB 510.643.9491
FAX 510.643.9290
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
