[PyMOL] command line and preset publication

2006-01-09 Thread James Knight
Is there a way to call the preset publication command from the action menu via the command line to allow use in scripts?

RE: [PyMOL] command line and preset publication

2006-01-09 Thread James Knight
1154 > . mailto:war...@delsci.com > > > > -Original Message- > > From: pymol-users-ad...@lists.sourceforge.net > > [mailto:pymol-users-ad...@lists.sourceforge.net] On Behalf Of > > James Knight > > Sent: Monday, January 09, 2006 10:44 AM > &g

[PyMOL] resize viewing window

2006-04-02 Thread James Knight
Is there a way to adjust the viewing window without dragging the mouse on a corner to do so? I need to resize the window for several files and want to make sure they are all the same. Thanks, James

[PyMOL] sticks don't touch backbone

2006-06-04 Thread James Knight
I'm trying to get a stick from the "C" carbon that is part of the backbone to the "O" it is double bonded to. I use the command: "show sticks, resi 100 and name c+o". I get a stick that doesn't touch the backbone. If I turn off all smoothing (set cartoon_smooth_loops, 0; set cartoon_flat_sheets, 0)

Re: [PyMOL] sticks don't touch backbone

2006-06-04 Thread James Knight
hink the cartoon is forced > through the Calpha, and not through all of the backbone atoms, so it > is not surprising that the carbonyl misses by a little. > > Cheers, > > -bob > > On 6/4/06, James Knight wrote: > > > > I'm trying to get a stick fr

Re: [PyMOL] sticks don't touch backbone

2006-06-05 Thread James Knight
> . 400 Oyster Point Blvd., Suite 213 > . South San Francisco, CA 94080 USA > . Biz:(650)-872-0942 Tech:(650)-872-0834 > . Fax:(650)-872-0273 Cell:(650)-346-1154 > . mailto:war...@delsci.com > > > > -Original Message- > > From: pymol-us

[PyMOL] two-dimensional 3D images

2006-10-31 Thread James Knight
tural biology will at least show a superficial interest - "look at the pretty pictures!" -- James Knight

Re: [PyMOL] two-dimensional 3D images

2006-11-03 Thread James Knight
y to do this with standard images generated in pymol? I'd like to add > > these kinds of images to a poster so that people normally uninterested > > in structural biology will at least show a superficial interest - "look > > at the pretty pictures!" > > > > > > -- > > James Knight > > > Pete Meyer > Fu Lab > BMCB grad student > Cornell University > -- James Knight