Bob,
Thanks for the note. The pdf files you generated were quite nice. I just
cannot get the quality of output you got using the PyMOL to dae to u3d to pdf
path. All I get are washed out colors. No surface properties (shine,
specular, etc.) at all.
PDF3DReportGen is the only software I have found that can give me close to the
representation I need. Even then, I have to use VMD, export to obj and then
import to PDF3DReportGen to get good quality graphics.
Very discouraging.
Jim
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From: Robert Hanson [mailto:hans...@stolaf.edu]
Sent: Saturday, April 02, 2016 1:14 AM
To: jimkress...@kressworks.org
Cc: Thomas Holder <thomas.hol...@schrodinger.com>; pymol-users
<pymol-users@lists.sourceforge.net>
Subject: Re: [PyMOL] The Wiki appears outdated or in error
In case you are interested, Jim, Jmol will read (most/some) PyMOL session
files, and Jmol can then create both an idtf for generating a u3d file, and a
small sample TeX file also that can be used to create a PDF containing it.
I had some interest in u3d back in 2009, when I wrote this exporter. You might
be interested in my notes at the top of
https://sourceforge.net/p/jmol/code/HEAD/tree/trunk/Jmol/src/org/jmol/export/_IdtfExporter.java
Here are a few examples created using Jmol: http://chemapps.stolaf.edu/jmol/u3d/
As I recall, the TeX file is necessary in order to properly reproduce the
viewport state.
My conclusion was that u3d is an absolutely unmanageable file format. Its
construction is totally obtuse, and the idtf->u3d converter has bugs that will
probably never be fixed. I could be wrong, and in the intervening years it has
improved, but my impression at the time was that it was an experimental format
out of Adobe's research labs that never really made it and hasn't been
developed much since then.
Its inclusion in PDF file quite frankly takes the "P" out of "PDF."
Bob Hanson
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