That's exactly what I just found out! Thanks! but I don't understand why sometimes it happens and other times it does not happen.
Cheers Afonso On Tue, May 18, 2010 at 4:17 PM, Matthew Franklin < matthew.frank...@imclone.com> wrote: > I suspect Afonso's talking about a moire / halftone dot pattern like the > one at this link: > > http://www.uvm.edu/~hag/presentations/maze2004/moire.html<http://www.uvm.edu/%7Ehag/presentations/maze2004/moire.html> > > I have no idea what would cause this, but if you have two identical copies > of a molecule, in the same representation, strange things can happen. For > example: > > load myprotein.pdb > hide everything > show cartoon > show spheres, residue 100 > create myproteincopy, myprotein > ray > > Sure enough, this creates a very odd speckled pattern on the raytraced > cartoon surface, but not on the spheres. It's not really a regular moire > pattern, but it could be considered a "newspaper pattern". > > So, Afonso, I think this is the culprit. Somewhere before you did your > raytracing, you set up two identical objects, which are both visible at > once. Try turning off the visibility of one of these (by clicking on its > name in the list in the PyMOL viewer) and the effect should go away. > > Hope that helps, > > 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: Tsjerk Wassenaar [mailto:tsje...@gmail.com] > > Sent: Tuesday, May 18, 2010 6:54 AM > > To: Afonso Duarte > > Cc: pymol-users@lists.sourceforge.net > > Subject: Re: [PyMOL] Strange pattern on the cartoon representation > > > > Hi Afonso, > > > > Can you tell which newspaper? And does it show the date? :) > > Seriously, it's difficult to make out more, unless you give more > > information, like a link to the image, or the series of commands you > > used to get to the point you're at. What you describe might be caused > > by two interfering surfaces,e.g., trying to show two times the same > > thing as cartoon. > > > > Cheers, > > > > Tsjerk > > > > On Tue, May 18, 2010 at 12:42 PM, Afonso Duarte > > <afonsomdua...@gmail.com> wrote: > > > Dear All, > > > > > > I am making some figures using ray. When the processing is finished I > > get a > > > strange pattern (like newspaper paper pattern) in my cartoon > > > representations, Spheres and sticks representations are OK only the > > cartoon. > > > I have tried to change the options on the cartoon representation but > > without > > > any sucess. > > > > > > Did any body had such problem before? > > > > > > Best > > > > > > Afonso > > > > > > --------------------------------------------------------------------- > > --------- > > > > > > > > > _______________________________________________ > > > PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) > > > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > > > Archives: http://www.mail-archive.com/pymol- > > us...@lists.sourceforge.net > > > > > > > > > > > -- > > Tsjerk A. Wassenaar, Ph.D. > > > > post-doctoral researcher > > Molecular Dynamics Group > > Groningen Institute for Biomolecular Research and Biotechnology > > University of Groningen > > The Netherlands > > > > ----------------------------------------------------------------------- > > ------- > > > > _______________________________________________ > > PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) > > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > 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. > >
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