also, there's a bug in Jmol (now fixed, for next release) that "model=n" does not work. You have to say model=1.1 or */1 but not just model=1 . I checked back, and this bug dates to Jmol 11.6.RC17 -- LONG ago!
Bob 2009/7/1 Angel Herráez <angel.herr...@uah.es> > > On Tue, Jun 30, 2009 at 5:47 PM, Dan Connolly <conno...@w3.org> > > wrote: > > > I'm struggling to understand how "define" works. > > Hello Dan > > "define" is rather simple, and dates back to Rasmol and Chime > scripting. > It's called a user-defined atom set. You give it a name and any atom > expression, and then you can use the name to specify that atom set. > > For example: > define proteinNitrogens protein and nitrogen > define myBindingSite protein and *:A and within(3.0,ligand) > > The name for the set may be anything as long as it is not a > JmolScript reserved word (that's why FGiJ is using the tilde for a > start), and it's case-insesitive as far as I reckon. > > As for why the exact script you have is not working, it's likely a > bug as Bob says. Try another version of Jmol to check. > > > > select :c; define ~contarget (selected and model=1); select none; > > select ~contarget; spacefill > > "select none" is trivial there: any selection overrides the previous > one. > Also, you can do that in several different variants: > > define ~contarget (*:c and */1); select ~contarget; spacefill > define ~contarget (*:c and 1.0); select ~contarget; spacefill > > Hope it helps > > > > > ------------------------------------------------------------------------------ > _______________________________________________ > Jmol-users mailing list > Jmol-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/jmol-users > -- Robert M. Hanson Professor of Chemistry St. Olaf College 1520 St. Olaf Ave. Northfield, MN 55057 http://www.stolaf.edu/people/hansonr phone: 507-786-3107 If nature does not answer first what we want, it is better to take what answer we get. -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900
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