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Re: [Jmol-developers] Question/request from SAGEmath for mesh displays...
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From: Robert H. <ha...@st...> - 2009-12-01 00:34:56
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I think it's great you are working with them on this. Since I have the way to draw arbitrary lines on an isosurface in JVXL, I wonder if it would be possible to do that (or some contouring) after the fact with isosurface -- sort of a combination of draw and isosurface. Bob On Mon, Nov 30, 2009 at 12:24 PM, Jonathan Gutow <gu...@uw...> wrote: > Bob, > Thanks. I think they want both contour lines and mesh. So far I've > only worked on the mesh part. I will keep in mind that they should > consider changing the format they use, but first I was trying to get > the basic interactive functionality they wanted working in the > SAGEnotebook interface using what they presently generate. Once that > is working I should be able to get a better idea of what they really > want to be able to do. Then I will prod them to change the files they > generate appropriately. I'm trying not to get involved in too much > rewriting to the SAGE code, just javaScript. One major project is > enough! > > Jonathan > On Nov 30, 2009, at 11:02 AM, Robert Hanson wrote: > > > Ah -- I see I did that just for contour lines -- latest upload has > > the same for mesh lines. 2 pixels forward of mesh surface, so they > > show up in rear as well as front. > > > > On Mon, Nov 30, 2009 at 10:47 AM, Robert Hanson <ha...@st...> > > wrote: > > Jonathan, are you using Jmol 11.9? I remember fixing this there - > > the renderer automatically pushes the mesh line just a pixel forward > > of the surface when rendering, even in the back. You can now > > customize the contour lines on an isosurface and color them any way > > you want. So please look into that -- contourlines instead of mesh. > > Talking with Jason, I think this is more what they are interested in > > anyway. I basically added functionality that matches Gnuplot in that > > regard. > > > > In addition, the latest JVXL file format now allows for arbitrary > > lines drawn on a mesh. Any color, any direction, any number. So that > > is the real way to go -- produce JVXL files that can display the > > desired lines and load them. "mesh" is not up to it. > > > > Bob > > > > > > > > On Fri, Nov 27, 2009 at 10:25 AM, Jonathan Gutow <gu...@uw...> > > wrote: > > I've been cooperating with the SAGE development team to get Jmol > > working better for viewing 3-D plots in SAGE. We are still discussing > > what a plot primitive would look like, but I ultimately think that is > > the way things should go. > > > > However, a separate issue of how meshes look has come up. Their > > first request was easy to deal with. I'm simply loading each surface > > twice and displaying one copy as mesh to allow for meshes of arbitrary > > color compared to the solid surface. We may want to include something > > different in the plot primitive, but this works well for now. The > > second issue is harder to deal with. Using either the built-in mesh > > or the second surface as mesh, mesh lines disappear as the surface > > angles back. At first I thought this was a perspective issue, but it > > seems to have something to do with whether solid surface or line color > > takes precedence for a pixel. Setting the solid surface to slightly > > translucent solves the problem for the case where I use a second > > surface to display the mesh. So the question for people who know more > > about the rendering is if there is a way the meshes could be made to > > have precedence when coloring a pixel, without making the solid > > surface translucent? One problem I foresee is that as we approach the > > vanishing point the color of the surface should take precedence. > > Maybe the balance needs to be adjusted? > > > > Jonathan > > Dr. Jonathan H. Gutow > > Chemistry Department gu...@uw... > > UW-Oshkosh Office: > > 920-424-1326 > > 800 Algoma Boulevard FAX:920-424-2042 > > Oshkosh, WI 54901 > > http://www.uwosh.edu/facstaff/gutow > > > > > > > > > > > > > > > ------------------------------------------------------------------------------ > > Let Crystal Reports handle the reporting - Free Crystal Reports 2008 > > 30-Day > > trial. Simplify your report design, integration and deployment - and > > focus on > > what you do best, core application coding. Discover what's new with > > Crystal Reports now. http://p.sf.net/sfu/bobj-july > > _______________________________________________ > > Jmol-developers mailing list > > Jmo...@li... > > https://lists.sourceforge.net/lists/listinfo/jmol-developers > > > > > > > > -- > > 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 > > > > > > > > -- > > 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 > > > ------------------------------------------------------------------------------ > > Let Crystal Reports handle the reporting - Free Crystal Reports 2008 > > 30-Day > > trial. Simplify your report design, integration and deployment - and > > focus on > > what you do best, core application coding. Discover what's new with > > Crystal Reports now. http://p.sf.net/sfu/bobj-july > > _______________________________________________ > > Jmol-developers mailing list > > Jmo...@li... > > https://lists.sourceforge.net/lists/listinfo/jmol-developers > > Dr. Jonathan H. Gutow > Chemistry Department gu...@uw... > UW-Oshkosh Office:920-424-1326 > 800 Algoma Boulevard FAX:920-424-2042 > Oshkosh, WI 54901 > http://www.uwosh.edu/facstaff/gutow > > > > > > > > ------------------------------------------------------------------------------ > Let Crystal Reports handle the reporting - Free Crystal Reports 2008 30-Day > trial. Simplify your report design, integration and deployment - and focus > on > what you do best, core application coding. Discover what's new with > Crystal Reports now. http://p.sf.net/sfu/bobj-july > _______________________________________________ > Jmol-developers mailing list > Jmo...@li... > https://lists.sourceforge.net/lists/listinfo/jmol-developers > -- 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 |