Hi Rye, How about connect_cutoff in Å? There's also connect_mode (http://www.pymolwiki.org/index.php/Connect_mode).
If you send me a copy of your file I can look at it. Cheers, -- Jason On Mon, Dec 3, 2012 at 4:03 PM, Rye Terrell <ryeterr...@ryeterrell.net> wrote: > I have a silicon bulk system. Pymol indicates that a handful of the atoms > are bonded to each other. Many bonds are not indicated. Is there some value > I can adjust that will make pymol indicate that more atoms are bonded? I > usually do this by setting some cutoff radius, but googling around has > yielded no results. I see that there is a way to bond atom pairs manually, > but that would be incredibly tedious given the number of bonds there should > be. > > Thanks for any help! > Rye > > ------------------------------------------------------------------------------ > Keep yourself connected to Go Parallel: > BUILD Helping you discover the best ways to construct your parallel > projects. > http://goparallel.sourceforge.net > _______________________________________________ > 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 -- Jason Vertrees, PhD Director of Core Modeling Product Management Schrödinger, Inc. (e) jason.vertr...@schrodinger.com (o) +1 (603) 374-7120 ------------------------------------------------------------------------------ LogMeIn Rescue: Anywhere, Anytime Remote support for IT. Free Trial Remotely access PCs and mobile devices and provide instant support Improve your efficiency, and focus on delivering more value-add services Discover what IT Professionals Know. Rescue delivers http://p.sf.net/sfu/logmein_12329d2d _______________________________________________ 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
