[PyMOL] Problem Compiling Pymol 1.2.x

2009-11-20 Thread Stephen P. Molnar
I had successfully compiled Plymol from the Subversion repository in OpenSuSE v103. Linux. I say successfully, because I have just upgraded my linux computer to OpenSuSE v11.2. Unfortunaltely, I have a bit of a problem compiling the source code in the new linux OS in that I can compile the PyMol

[PyMOL] make morph with rigimol

2009-11-20 Thread Huang, Xin
I want to make movie showing conformational changes of one helix (including a couple of side chains) between two structures of the same protein. Could anybody teach me how to make morph using pymol version 1.2r2? Many Thanks.

Re: [PyMOL] Problem Compiling Pymol 1.2.x

2009-11-20 Thread Andreas Förster
Hey Stephen, make sure you have Tkinter and freeglut-devel installed. These are the dependencies that make trouble in RHEL. Andreas Stephen P. Molnar wrote: > I had successfully compiled Plymol from the Subversion repository in > OpenSuSE v103. Linux. > > I say successfully, because I have

Re: [PyMOL] make morph with rigimol

2009-11-20 Thread Michael Zimmermann
one option would be to make intermediates based on linear interpolation and then make a movie of the "morph." Gerstein's group has done some work at this. http://www2.molmovdb.org/wiki/info/index.php/Morph_Server If you just want to visualize them together my suggestion would be to: show one of t

Re: [PyMOL] Problem Compiling Pymol 1.2.x

2009-11-20 Thread Donnie Berkholz
On 13:38 Fri 20 Nov , Stephen P. Molnar wrote: > I had successfully compiled Plymol from the Subversion repository in > OpenSuSE v103. Linux. > > I say successfully, because I have just upgraded my linux computer to > OpenSuSE v11.2. Unfortunaltely, I have a bit of a problem compiling the > s

Re: [PyMOL] Problem Compiling Pymol 1.2.x

2009-11-20 Thread Stephen P. Molnar
On 11/20/2009 01:57 PM, Andreas Förster wrote: > Hey Stephen, > > make sure you have Tkinter and freeglut-devel installed. These are > the dependencies that make trouble in RHEL. > > > Andreas > > > > Stephen P. Molnar wrote: >> I had successfully compiled Plymol from the Subversion repository in

Re: [PyMOL] make morph with rigimol

2009-11-20 Thread Jason Vertrees
Michael, Great advice. Also, I'd like to point out that the incentive build of PyMOL ships with the rigimol morphing module built in. Rigimol is only to be used for visualization, not for pathwway determination. If you only need to make a movie and don't necessarily care about a perfect pathway

Re: [PyMOL] Problem Compiling Pymol 1.2.x

2009-11-20 Thread Stephen P. Molnar
On 11/20/2009 02:16 PM, Donnie Berkholz wrote: > On 13:38 Fri 20 Nov , Stephen P. Molnar wrote: > >> I had successfully compiled Plymol from the Subversion repository in >> OpenSuSE v103. Linux. >> >> I say successfully, because I have just upgraded my linux computer to >> OpenSuSE v11.2. U

Re: [PyMOL] Problem Compiling Pymol 1.2.x

2009-11-20 Thread Justin Lecher
Stephen P. Molnar wrote: > Here's teh end of the log file that I recorded. I really don't have > anyplace to which to upload the entire 125 kb log file. Hi Stephen, as Donnie already mentioned, we cannot help if we could not see the _complete_ build.log. From the part you past, it looks succesfu

Re: [PyMOL] Problem Compiling Pymol 1.2.x

2009-11-20 Thread Jason Vertrees
Stephen, openSuse Linux does not come with Pmw installed by default. Please re-download and install Pmw. Let me know if it's something else. -- Jason Jason Vertrees, PhD PyMOLWiki -- http://www.pymolwiki.org On Fri, Nov 20, 2009 at 4:54 PM, Justin Lecher wrote: > Stephen P. Molnar wrote: >

Re: [PyMOL] make morph with rigimol

2009-11-20 Thread Jason Vertrees
I realized I made a mistake. The proper import statement is: from epymol import rigimol This is shipped in the incentive build of 1.1r2. -- Jaso Jason Vertrees, PhD PyMOLWiki -- http://www.pymolwiki.org On Fri, Nov 20, 2009 at 2:50 PM, Huang, Xin wrote: > Thanks Jason.  Does the latest