Re: [PyMOL] wire-mesh spheres?

2012-10-24 Thread Matthew Baumgartner
Hi, So some brief background, I am writing a pymol plugin for displaying pharmacophores queries from ZincPharmer ( http://zincpharmer.csb.pitt.edu/), which is developed in my lab. Version 1 of my plugin is available here: http://sourceforge.net/projects/pharmer/files/ under the name load_query

Re: [PyMOL] wire-mesh spheres?

2012-10-24 Thread Jason Vertrees
Hi Matt, There's currently no easy way to do this. Can you please send us some screenshots of what you'd like to see implemented? Cheers, -- Jason On Tue, Oct 23, 2012 at 4:16 PM, Matthew Baumgartner wrote: > Hi, > Is it now possible to have wire mesh cgo object spheres in pymol? > I found thi

Re: [PyMOL] Custom menus and shortcuts?

2012-10-24 Thread Boris Kheyfets
If you need a global variable, use pymol.stored > Thank You Thomas -- that solves it. Boris. On Tue, Oct 23, 2012 at 9:28 PM, Boris Kheyfets wrote: > Found a solution. > > Basically it is to add > > pmg_tk/startup/newmenu.py > > file with the following content: > > from Tkinter import * > from

Re: [PyMOL] How to rotate entire section of structure relative to rest

2012-10-24 Thread Thomas Holder
Hi Alex, sculpting is not the right tool for your task. PyMOL has all the basic editing features like rotating around a bond etc. Enter "Editing" mode, pick a bond with the mouse and rotate around the bond by pressing CTRL and click-dragging a second atom. You can enter Editing Mouse Mode by c

Re: [PyMOL] Custom menus and shortcuts?

2012-10-24 Thread Thomas Holder
Hi Boris, Boris Kheyfets wrote, On 10/23/12 19:28: >[...] > But I want bk_hides_W to be a toggler. So I need a way to set a state of > my defun. > If I do > > def bk_toggles_W (): > "Hides W molecules." > if cmd.get("bk_toggles_W"): > cmd.hide("all") > cmd.show("spheres", "n