Re: [PyMOL] pymol dies when minimizing

2010-06-02 Thread Maia Cherney
I had once a problem with pymol that itr would not open from a terminal window. After a long battle with it, the problem was solved after I upgraded my OS. Robin Emig wrote: > > Does anyone else have the problem where pymol dies, or wont update the > display after minimizing on windows? Is ther

Re: [PyMOL] pymol dies when minimizing

2010-06-02 Thread Joel Tyndall
Hi, Yeah I have a similar issue and have been meaning to post it. On windows 7 following minimization, the viewer doesn't update when you open it again, no menus either. Using PyMOL 1.2r2 Looking forward to a solution J _ Joel Tyndall, PhD Senior Lecturer in M

[PyMOL] convert surface from pymol into a CCP4 map

2010-06-02 Thread Mark A Saper
I have a nice cavity surface that I've made in PyMOL. I'd like to convert it to some type of envelope in CCP4 map format, for input into Coot. I know that surfaces can be saved in .wrl format. I've also tried using Voidoo to prepare a pseudo-map representing the cavity, but it doesn't look as

[PyMOL] Fwd: abalone

2010-06-02 Thread mohan raj
hello all: any abalone users -- Forwarded message -- From: mohan raj Date: Wed, Jun 2, 2010 at 11:41 AM Subject: abalone To: PyMOL-users@lists.sourceforge.net hi all: i have came across the sowftware "abalone" for molecular simulations, where they have

[PyMOL] how to add Mg2+ in protein

2010-06-02 Thread Sangita Kachhap
Hello all I am new user for pymol.Is it possible to add Mg2+ in enzyme catalytic site using pymol? If possible then can anybody give me idea about how I can add Mg2+ in protein? With regard Sangita Kachhap JRF BIC,IMTECH CHANDIGARH --

Re: [PyMOL] pymol dies when minimizing

2010-06-02 Thread Jason Vertrees
Maia and Robin, What version of Windows and PyMOL are you using? Cheers, -- Jason On Wed, Jun 2, 2010 at 10:52 AM, Maia Cherney wrote: > I had once a problem with pymol that itr would not open from a terminal > window. After a long battle with it, the problem was solved after I > upgraded my