From: Jason V. <jas...@sc...> - 2010-05-22 18:46:01
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Hi all, Don't worry it's still there, just under a different command. Stick_color, stick_transparency, etc are properties of bonds, so it's best to now use 'set_bond' intead of 'set'. For example, set_bond stick_transparency, 0.5, objectName Cheers, -- Jason On Fri, May 21, 2010 at 3:13 PM, Michael Zimmermann <mic...@ia...> wrote: > Sorry, I didn't mention that I use 1.2r1 on xinXP > It could be a version difference if the command does not work correctly for > you. > > On Fri, May 21, 2010 at 11:50 AM, Ariel Talavera <tal...@ci...> > wrote: >> >> Hi again, >> >> Actually it seems that for some reason the comma after the value (0.5) >> invalidate the command line. >> >> Ariel >> >> On Fri, 2010-05-21 at 11:40 -0500, Matthew Franklin wrote: >> > (I'm putting this back on-list) >> > >> > That's too bad. It worked for me: PyMOL 1.2r2, Windows XP. Can you set >> > other properties of this object: color, stick_radius, etc.? >> > >> > - Matt >> > >> > >> > >> > -- >> > Matthew Franklin , Ph.D. >> > Senior Scientist, ImClone Systems, >> > a wholly owned subsidiary of Eli Lilly & Company >> > 180 Varick Street, 6th floor >> > New York, NY 10014 >> > phone:(917)606-4116 fax:(212)645-2054 >> > >> > >> > > -----Original Message----- >> > > From: Ariel Talavera [mailto:tal...@ci...] >> > > Sent: Friday, May 21, 2010 12:26 PM >> > > To: Matthew Franklin >> > > Subject: RE: [PyMOL] stick transparency >> > > >> > > Thanks for the very quick answer, but it didn't succeed. >> > > >> > > Best, >> > > Ariel >> > > >> > > On Fri, 2010-05-21 at 11:18 -0500, Matthew Franklin wrote: >> > > Hi Ariel - >> > > >> > > Try "set stick_transparency=0.5, peg_1" >> > > >> > > - Matt >> > > >> > > >> > > -- >> > > Matthew Franklin , Ph.D. >> > > Senior Scientist, ImClone Systems, >> > > a wholly owned subsidiary of Eli Lilly & Company >> > > 180 Varick Street, 6th floor >> > > New York, NY 10014 >> > > phone:(917)606-4116 fax:(212)645-2054 >> > > >> > > > -----Original Message----- >> > > > From: Ariel Talavera [mailto:tal...@ci...] >> > > > Sent: Friday, May 21, 2010 12:01 PM >> > > > To: pym...@li... >> > > > Subject: [PyMOL] stick transparency >> > > > >> > > > Hi there, >> > > > >> > > > I am trying to set stick transparency using the following command: >> > > > set stick_transparency, 0.5, peg_1, but with no success. The problem >> > > > is >> > > > with the selection, because if I use instead, set >> > > > stick_transparency, >> > > > 0.5, then every thing represented with stick get 50% transparent. >> > > > Can >> > > > you help with this? I am using Pymol 1.2 under Ubuntu 10.04. >> > > > >> > > > Thanks a lot in advanced, >> > > > >> > > > Best regards, >> > > > Ariel >> > > > >> > Confidentiality Note: >> > This e-mail, and any attachment to it, contains privileged and >> > confidential information intended only for the use of the individual(s) or >> > entity named on the e-mail. If the reader of this e-mail is not the intended >> > recipient, or the employee or agent responsible for delivering it to the >> > intended recipient, you are hereby notified that reading it is strictly >> > prohibited. If you have received this e-mail in error, please immediately >> > return it to the sender and delete it from your system. >> > >> > Thank you. >> >> >> >> >> ------------------------------------------------------------------------------ >> >> _______________________________________________ >> PyMOL-users mailing list (PyM...@li...) >> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users >> Archives: http://www.mail-archive.com/pym...@li... > > > > -- > Michael Zimmermann > Ph.D. student in Bioinformatics and Computational Biology > Department of Biochemistry, Biophysics and Molecular Biology > Iowa State University > > ------------------------------------------------------------------------------ > > > _______________________________________________ > 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 |