From: Nicolas B. <nic...@gm...> - 2011-05-18 17:39:56
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Hello list, I would like to change the stick_transparency for a selection but it doesn't seem to work. I am using the xyz file from the wiki: http://www.pymolwiki.org/index.php/Visualizing_a_computed_structure_-_a_commented_example and the attached script. What am I doing wrong? Thanks already, nick |
From: Jason V. <jas...@sc...> - 2011-05-18 18:08:35
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Hi Nick, Sticks are bonds. For that we use "set_bond" not set. Try: set_bond stick_transparency, 0.8, rest set_bond stick_transparency, 0.0, sel_01 Cheers, -- Jason On Wed, May 18, 2011 at 1:39 PM, Nicolas Bock <nic...@gm...> wrote: > Hello list, > > I would like to change the stick_transparency for a selection but it > doesn't seem to work. I am using the xyz file from the wiki: > > http://www.pymolwiki.org/index.php/Visualizing_a_computed_structure_-_a_commented_example > > and the attached script. What am I doing wrong? > > Thanks already, nick > > ------------------------------------------------------------------------------ > What Every C/C++ and Fortran developer Should Know! > Read this article and learn how Intel has extended the reach of its > next-generation tools to help Windows* and Linux* C/C++ and Fortran > developers boost performance applications - including clusters. > http://p.sf.net/sfu/intel-dev2devmay > _______________________________________________ > 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 Schrodinger, LLC (e) Jas...@sc... (o) +1 (603) 374-7120 |
From: Nicolas B. <nic...@gm...> - 2011-05-18 18:34:37
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Hi Jason, thanks, that works! nick On 05/18/11 12:08, Jason Vertrees wrote: > Hi Nick, > > Sticks are bonds. For that we use "set_bond" not set. > > Try: > > set_bond stick_transparency, 0.8, rest > set_bond stick_transparency, 0.0, sel_01 > > Cheers, > > -- Jason > > On Wed, May 18, 2011 at 1:39 PM, Nicolas Bock <nic...@gm...> wrote: >> Hello list, >> >> I would like to change the stick_transparency for a selection but it >> doesn't seem to work. I am using the xyz file from the wiki: >> >> http://www.pymolwiki.org/index.php/Visualizing_a_computed_structure_-_a_commented_example >> >> and the attached script. What am I doing wrong? >> >> Thanks already, nick >> >> ------------------------------------------------------------------------------ >> What Every C/C++ and Fortran developer Should Know! >> Read this article and learn how Intel has extended the reach of its >> next-generation tools to help Windows* and Linux* C/C++ and Fortran >> developers boost performance applications - including clusters. >> http://p.sf.net/sfu/intel-dev2devmay >> _______________________________________________ >> PyMOL-users mailing list (PyM...@li...) >> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users >> Archives: http://www.mail-archive.com/pym...@li... >> > > > |
From: Robert C. <rob...@qu...> - 2011-05-18 18:27:47
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Hi Nick, On Wed, 2011-05-18 11:39 EDT, Nicolas Bock <nic...@gm...> wrote: > Hello list, > > I would like to change the stick_transparency for a selection but it > doesn't seem to work. I am using the xyz file from the wiki: > > http://www.pymolwiki.org/index.php/Visualizing_a_computed_structure_-_a_commented_example > > and the attached script. What am I doing wrong? > > Thanks already, nick Your commands are: load example.xyz hide all show sticks select sel_01, ID 38 ID 39 ID 42 ID 43 ID 44 ID 45 select rest, all and not sel_01 disable rest set stick_transparency, 0.8, rest set stick_transparency, 0.0, sel_01 I think you'll find that the transparency settings only work with whole objects and not with selections that are subsets of objects. Cheers, Rob -- Robert L. Campbell, Ph.D. Senior Research Associate/Adjunct Assistant Professor Botterell Hall Rm 644 Department of Biochemistry, Queen's University, Kingston, ON K7L 3N6 Canada Tel: 613-533-6821 Fax: 613-533-2497 <rob...@qu...> http://pldserver1.biochem.queensu.ca/~rlc |