Bill, I can take a look at this, since I wrote much of the isosurface method
code. Could very well be a bug there. What version of Jmol are you using?
Please try swapping in the latest Jmol 11.7 jar file just to see if that
makes any difference. It could be something that just didn't get fixed in
the 11.6 code.
Generally that result means there is an error in the writing of the JVXL
file.
Bob
On Wed, Apr 15, 2009 at 6:26 PM, William Cauchois <[email protected]>wrote:
> Hello,
>
> I am a developer working on the open-source mathematical software Sage
> (<http://sagemath.org>). We use Jmol as one of our rendering backends
> for plotting functions in 3D. I am currently helping to implement an
> implicit 3D plotting feature, to graph contours of functions of the
> form f(x,y,z)=c. You can view our progress at
> <http://trac.sagemath.org/sage_trac/ticket/5249>. This type of plot is
> an isosurface, so to communicate with the Jmol backend we chose to use
> the JVXL format -- our software outputs a JVXL file describing the
> plot which is then rendered by Jmol. However, many of the plots appear
> very jagged when rendered by Jmol.
>
> Let me show you what I mean. Here are three pictures of the plot for
> (x^3 + y^2 - z^2) = 0:
> * This one is rendered at a low resolution (10x10x10) by Jmol:
> <http://students.washington.edu/wcauchoi/misc/jmol_plot_lores.jpeg>.
> The surface is not at all smooth.
> * This one is rendered at a higher resolution (100x100x100) by Jmol:
> <http://students.washington.edu/wcauchoi/misc/jmol_plot_hires.jpeg>.
> The surface is covered in small bumps.
> * For comparison, here it is rendered using Tachyon (our other
> backend): <http://students.washington.edu/wcauchoi/misc/tachyon_plot.png>.
>
> I've been trying to find bugs in our code, to no avail. Is there
> anyone well-versed in the JVXL format who knows why this might be
> happening?
>
> Thanks,
> Bill Cauchois
>
>
> ------------------------------------------------------------------------------
> Stay on top of everything new and different, both inside and
> around Java (TM) technology - register by April 22, and save
> $200 on the JavaOne (SM) conference, June 2-5, 2009, San Francisco.
> 300 plus technical and hands-on sessions. Register today.
> Use priority code J9JMT32. http://p.sf.net/sfu/p
> _______________________________________________
> Jmol-users mailing list
> [email protected]
> https://lists.sourceforge.net/lists/listinfo/jmol-users
>
--
Robert M. Hanson
Professor of Chemistry
St. Olaf College
1520 St. Olaf Ave.
Northfield, MN 55057
http://www.stolaf.edu/people/hansonr
phone: 507-786-3107
If nature does not answer first what we want,
it is better to take what answer we get.
-- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900
------------------------------------------------------------------------------
Stay on top of everything new and different, both inside and
around Java (TM) technology - register by April 22, and save
$200 on the JavaOne (SM) conference, June 2-5, 2009, San Francisco.
300 plus technical and hands-on sessions. Register today.
Use priority code J9JMT32. http://p.sf.net/sfu/p
_______________________________________________
Jmol-users mailing list
[email protected]
https://lists.sourceforge.net/lists/listinfo/jmol-users
