Hi all,

Tsjerk- Thanks. I'm not sure how I missed that, given that it's even mentioned on the wiki on the surface page under the clear heading "Exporting Surface/Mesh Coordinates to File" :-|. (http://www.pymolwiki.org/index.php/Surface#Exporting_Surface.2FMesh_Coordinates_to_File). I don't know anything about VRML, but I found some documentation online at http://www.c3.hu/cryptogram/vrmltut/part5.html and it looks really straightforward. The surface will show up in the VRML file as an IndexedFaceSet, and the points are just XYZ triples, and I can safely ignore everything else.

Darrell- Thanks. I'll build that in as an option.

Takanori- Thanks. That's really cool. I happen to want solvent accessible surfaces rather than isosurfaces, but "dump" is definitely going into my bag of tricks.

Cheers,
-Michael

On Mon, Jun 11, 2012 at 8:57 PM, Takanori Nakane <t.nakane@mail.mfour.med.kyoto-u.ac.jp> wrote:
Hi,

Another way:
There is an undocumented API called 'dump', which can
dump coordinates of isomesh/isosurface to a file.

For mesh, it dumps a list of vertex coordinates, which
can be rendered as GL_LINE_STRIP.
For surface, it dumps a list of pairs of a vertex coordinate
and its vertex normal vector, which can be rendered as GL_TRIANGLES.

Please examine my old post for a script example.
http://www.mail-archive.com/pymol-users@lists.sourceforge.net/msg10012.html

Best regards,

Takanori Nakane

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Michael Lerner
Department of Physics and Astronomy
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