[PyMOL] electrostatic potential as cartoon?

. Vincent -- Vincent Chaptal, PhD Institut de Biologie et Chimie des Protéines Drug Resistance and Membrane Proteins Laboratory 7 passage du Vercors 69007 LYON FRANCE +33 4 37 65 29 01 http://www.ibcp.fr -- Check

Re: [PyMOL] PyMOL-users Digest, Vol 116, Issue 15

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 -- Vincent Chaptal, PhD Institut de Biologie et Chimie des Protéines Drug Re

[PyMOL] cgo bug during ray tracing?

, 0, -15.8 # end point radius = 45.4 cmd.load_cgo( [ 25.0, 0.5, 9.0, x1, y1, z1, x2, y2, z2, radius, r1, g1, b1, r1, g1, b1 ], "cylinder1" ) Thank you for your help. vincent -- Vincent Chaptal, PhD Institut de Biologie et Chimie des Protéines Drug Resistance and Membrane Proteins L

[PyMOL] bonds in ligands for MD simulations?

M6140B3LIG978119.340 130.290 108.5901.000.00 ... thank you for your help. best Vincent -- Vincent Chaptal, PhD Institut de Biologie et Chimie des Protéines Drug-resistance modulation and mechanism Laboratory 7 passage du Vercors 69007 LYON FRANCE +33 4 37

Re: [PyMOL] white background is black when opaque_background is off

Sorry, I meant in the title, opaque_background set to off. Le 9/16/14 3:03 PM, vincent Chaptal a écrit : Hi all, when I use : cmd.set('''opaque_background''','''0''',quiet=0) cmd.bg_color('white') the background is bla

[PyMOL] white background is black when opaque_background is on

at all times when setting the opacity off? I'm using pymol 1.7.2. It didn't happen on previous versions. (as a workaround, i could comment the "opaque background off", and decomment it when I ray trace the image, but it would be nice to have the full settings working init

Re: [PyMOL] drawing arows, CONE cgo doesn't work. -- SOLVED

/index.php/Cgo_arrow Hope this helps. Cheers, Andreas On Mon, Aug 25, 2014 at 5:48 PM, vincent Chaptal mailto:vincent.chap...@ibcp.fr>> wrote: Hi, I'm trying to draw arrows in Pymol 1.7.2 for mac, "à la http://www.pymolwiki.org/index.php/Axes " When I

[PyMOL] drawing arows, CONE cgo doesn't work.

CYLINDER by CONE), pymol loads the object but doesn't draw anything. cmd.load_cgo( [ CONE, x0, y0, z0, x1, y1, z1, radius, r1, g1, b1, r1, g1, b1 ], "cone_a" ) Can someone tell me what is going on and how I can draw a cgo CONE in pymol? It looks very nice. Thank you Vincent

[PyMOL] problem with "distance"

have this problem. Can you help me? Vincent -- Vincent Chaptal, PhD Institut de Biologie et Chimie des Protéines Drug-resistance modulation and mechanism Laboratory 7 passage du Vercors 69007 LYON FRANCE +33 4 37 65 29 01 http://www.ibcp.fr

Re: [PyMOL] disconnected loop in pymol

ice loop where the > break is? > (see small image attached) > > Thanks in advance, > > Tassos > > > > > > -------- > -- Vincent Chaptal Dept. of Physiology at UCLA http://www.physiology.ucla.edu/Labs/

[PyMOL] COVER image

Hello, I am trying to make a picture for a cover and I am wondering how to make a vertical image. (Pymol creates horizontal images, and journal covers are vertical) Is there a way to creates those vertical images other than turning the image 90 degrees with the 'turn z, 90' command? thanks v

[PyMOL] manual docking problem

. any ideas to keep the protein as one single piece? I am using version 0.98 on windows xp. thanks vincent Vincent Chaptal CNRS, LEBS-bat 34 1 Av de la terrasse 91 198 gif sur Yvette tel: 01 69 82 42 04 fax: 01 69 82 31 29 http://www.lebs.cnrs-gif.fr/