From: Daniel L. <la...@xr...> - 2012-02-14 16:36:16
|
Hi, Is there a way to render truncated/clipped objects as "dense". I.e. a "lid" on clipped objects, such as surfaces or spheres. Want I want is something similar to the "A sliced image" example in the wiki gallery (http://www.pymolwiki.org/index.php/Gallery), but with that technique I can only pick one color for all molecules. I would like to set "ray_interior_color" different for different molecules or objects. Basically, I want the color to be the same on the inside as on the outside. It would be great if it would work with the "draw" command as well. Is it possible with version 1.5? Or is there a chances of having this implemented anytime soon? Daniel |
From: Jason V. <jas...@sc...> - 2012-02-14 16:50:32
|
Daniel, # reset the setting set ray_interior_color, default # set the setting for each object set ray_interior_color, marine, protA set ray_interior_color, magenta, protB PyMOL does not support this via the 'draw' command (unless you set draw_mode, 3, but that's just ray tracing). Please file an RFE and we'll look into it. Cheers, -- Jason On Tue, Feb 14, 2012 at 11:17 AM, Daniel Larsson <la...@xr...> wrote: > Hi, > > Is there a way to render truncated/clipped objects as "dense". I.e. a "lid" on clipped objects, such as surfaces or spheres. > > Want I want is something similar to the "A sliced image" example in the wiki gallery (http://www.pymolwiki.org/index.php/Gallery), but with that technique I can only pick one color for all molecules. I would like to set "ray_interior_color" different for different molecules or objects. Basically, I want the color to be the same on the inside as on the outside. It would be great if it would work with the "draw" command as well. > > Is it possible with version 1.5? Or is there a chances of having this implemented anytime soon? > > Daniel > > > ------------------------------------------------------------------------------ > Keep Your Developer Skills Current with LearnDevNow! > The most comprehensive online learning library for Microsoft developers > is just $99.99! Visual Studio, SharePoint, SQL - plus HTML5, CSS3, MVC3, > Metro Style Apps, more. Free future releases when you subscribe now! > http://p.sf.net/sfu/learndevnow-d2d > _______________________________________________ > PyMOL-users mailing list (PyM...@li...) > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > Archives: http://www.mail-archive.com/pym...@li... -- Jason Vertrees, PhD PyMOL Product Manager Schrödinger, LLC (e) Jas...@sc... (o) +1 (603) 374-7120 |
From: Daniel L. <la...@xr...> - 2012-02-14 17:01:08
|
Thanks for the quick reply. A closely related issue is that clipped spheres are rendered very strangely. It seems they only consists of a half-sphere and if the clipping plane intersects the sphere in the front-most half, then you can see straight through it. Daniel On Feb 14, 2012, at 17:50 , Jason Vertrees wrote: > Daniel, > > # reset the setting > > set ray_interior_color, default > > # set the setting for each object > > set ray_interior_color, marine, protA > > set ray_interior_color, magenta, protB > > > PyMOL does not support this via the 'draw' command (unless you set > draw_mode, 3, but that's just ray tracing). Please file an RFE and > we'll look into it. > > Cheers, > > -- Jason > > On Tue, Feb 14, 2012 at 11:17 AM, Daniel Larsson <la...@xr...> wrote: >> Hi, >> >> Is there a way to render truncated/clipped objects as "dense". I.e. a "lid" on clipped objects, such as surfaces or spheres. >> >> Want I want is something similar to the "A sliced image" example in the wiki gallery (http://www.pymolwiki.org/index.php/Gallery), but with that technique I can only pick one color for all molecules. I would like to set "ray_interior_color" different for different molecules or objects. Basically, I want the color to be the same on the inside as on the outside. It would be great if it would work with the "draw" command as well. >> >> Is it possible with version 1.5? Or is there a chances of having this implemented anytime soon? >> >> Daniel >> >> >> ------------------------------------------------------------------------------ >> Keep Your Developer Skills Current with LearnDevNow! >> The most comprehensive online learning library for Microsoft developers >> is just $99.99! Visual Studio, SharePoint, SQL - plus HTML5, CSS3, MVC3, >> Metro Style Apps, more. Free future releases when you subscribe now! >> http://p.sf.net/sfu/learndevnow-d2d >> _______________________________________________ >> PyMOL-users mailing list (PyM...@li...) >> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users >> Archives: http://www.mail-archive.com/pym...@li... > > > > -- > Jason Vertrees, PhD > PyMOL Product Manager > Schrödinger, LLC > > (e) Jas...@sc... > (o) +1 (603) 374-7120 |
From: Jason V. <jas...@sc...> - 2012-02-14 17:40:32
|
Daniel, Filling clipped spheres is not yet available. We'll look at adding it. Cheers, -- Jason On Tue, Feb 14, 2012 at 12:00 PM, Daniel Larsson <la...@xr...> wrote: > Thanks for the quick reply. > > A closely related issue is that clipped spheres are rendered very strangely. It seems they only consists of a half-sphere and if the clipping plane intersects the sphere in the front-most half, then you can see straight through it. > > Daniel > > > On Feb 14, 2012, at 17:50 , Jason Vertrees wrote: > >> Daniel, >> >> # reset the setting >> >> set ray_interior_color, default >> >> # set the setting for each object >> >> set ray_interior_color, marine, protA >> >> set ray_interior_color, magenta, protB >> >> >> PyMOL does not support this via the 'draw' command (unless you set >> draw_mode, 3, but that's just ray tracing). Please file an RFE and >> we'll look into it. >> >> Cheers, >> >> -- Jason >> >> On Tue, Feb 14, 2012 at 11:17 AM, Daniel Larsson <la...@xr...> wrote: >>> Hi, >>> >>> Is there a way to render truncated/clipped objects as "dense". I.e. a "lid" on clipped objects, such as surfaces or spheres. >>> >>> Want I want is something similar to the "A sliced image" example in the wiki gallery (http://www.pymolwiki.org/index.php/Gallery), but with that technique I can only pick one color for all molecules. I would like to set "ray_interior_color" different for different molecules or objects. Basically, I want the color to be the same on the inside as on the outside. It would be great if it would work with the "draw" command as well. >>> >>> Is it possible with version 1.5? Or is there a chances of having this implemented anytime soon? >>> >>> Daniel >>> >>> >>> ------------------------------------------------------------------------------ >>> Keep Your Developer Skills Current with LearnDevNow! >>> The most comprehensive online learning library for Microsoft developers >>> is just $99.99! Visual Studio, SharePoint, SQL - plus HTML5, CSS3, MVC3, >>> Metro Style Apps, more. Free future releases when you subscribe now! >>> http://p.sf.net/sfu/learndevnow-d2d >>> _______________________________________________ >>> PyMOL-users mailing list (PyM...@li...) >>> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users >>> Archives: http://www.mail-archive.com/pym...@li... >> >> >> >> -- >> Jason Vertrees, PhD >> PyMOL Product Manager >> Schrödinger, LLC >> >> (e) Jas...@sc... >> (o) +1 (603) 374-7120 > -- Jason Vertrees, PhD PyMOL Product Manager Schrödinger, LLC (e) Jas...@sc... (o) +1 (603) 374-7120 |