Jason, The problem is that your script is changing the setting for the specific object-state by passing it an explicit object name and state number.
cmd.set( "sphere_transparency", str(val), spheres, 0, 1, 1 ) As an important compatibility consideration, I recommend for all API functions that you only ever pass the specific arguments you need to pass to API functions, and no others. In this case, I think that would be: cmd.set( "sphere_transparency", str(val)) which simply changes the global "sphere_transparency" setting. That would then make it possible for a subsequent: set sphere_transparency, 0 To have the effect you expect. Cheers, Warren > -----Original Message----- > From: pymol-users-ad...@lists.sourceforge.net > [mailto:pymol-users-ad...@lists.sourceforge.net] On Behalf Of > Jason Vertrees > Sent: Tuesday, April 13, 2004 10:28 PM > To: PyMol Users List > Subject: [PyMOL] set sphere_transparency? > > Hey folks, > > Is this a bug or my incorrect usage of PyMol? (Using 0.95 on > a Dual 64-bit Opteron SuSe 9.0 system.) > > I used this script (http://vertrees.org/~tree/fade_out.py) to > create some images for a my first super-simple movie > (http://vertrees.org/~tree/output.mpeg). > > The image (http://vertrees.org/~tree/bad_spheres.png) is the > last image the script creates. > > The problem is that > set sphere_transparency, 0 > doesn't seem to work after my script is run. (The > bad_spheres.png above show the command and resulting PyMol > model/state.) So the bad_spheres.png file doesn't respond to > 'set sphere_transparency, 0'. > > I'm a novice at PyMol and Python scripting, so I'm sure this > is my fault instead of PyMol's. > > I've tried new selections, enable/disabling things and > whatnot. Still sphere's refuse to play nicely. Oddly enough, > 'hide spheres' works well. I've also 'mclear'ed and more. > > Any ideas? > > Thanks! > > -- Jason > > -- > > Jason Vertrees > BSCB Graduate Student @ UTMB, Galveston > javer...@utmb.edu :: http://www.bscb.utmb.edu > > > ------------------------------------------------------- > This SF.Net email is sponsored by: IBM Linux Tutorials Free > Linux tutorial presented by Daniel Robbins, President and CEO > of GenToo technologies. Learn everything from fundamentals to > system > administration.http://ads.osdn.com/?ad_id=1470&alloc_id=3638&op=click > _______________________________________________ > PyMOL-users mailing list > PyMOLfirstname.lastname@example.org > https://lists.sourceforge.net/lists/listinfo/pymol-users >