[PyMOL] Rotation of maps when aligning
Hi PyMOLers I have a bunch of structures, for which I have calculated electrostatic potential maps (using Gromacs and MEAD). I can easily load the structures and corresponding maps into PyMOL and display a color coded surface. But when I try to align the structures, only the atomic coordinates are transformed - the electrostatic maps remain in their original orientations. As PyMOL update the surfaces after the alignment, the resulting surface colors are completely wrong. Doing things in another order doesn't help. As far as I can see from a posting from March 3rd (by John Eksterowicz), the problem is exactly the same for a density map. In my case, the workaround is to align all the structures before I do the electrostatic calculation - but it would be better if the maps could be assigned to the coordinate system of a structure. In this way, the maps would still be vaild after a 3D-alignment. Is there a way to do this? Best regards Esben
[PyMOL] GLX error
Dear All, I am running Pymol 0.95 on Mandrake Linux 10.0, or at least I was until today. Yesterday I performed a standard update on the system, and today pymol crashes with the following error: GLUT: Fatal Error in pymol.exe: OpenGL GLX extension not supported by display: :0.0 PyMOL: abrupt program termination. I went and rerun the setup program setup.sh to see if it would help, but no success. Any advice greatly appreciated. regards, Richard Baxter
Re: [PyMOL] GLX error
On Tue, May 11, 2004 at 05:18:37PM -0500, rbax...@uchicago.edu wrote: I am running Pymol 0.95 on Mandrake Linux 10.0, or at least I was until today. Yesterday I performed a standard update on the system, and today pymol crashes with the following error: GLUT: Fatal Error in pymol.exe: OpenGL GLX extension not supported by display: :0.0 PyMOL: abrupt program termination. That looks like a problem with your XServer not supporting OpenGL/GLX/3D stuff in general, not something specific to pymol. Try running 'glxgears' or any other OpenGL application, does that work? Michael
RE: [PyMOL] GLX error
Michael, This is what can sometime happen when you update system libraries underneath vendor-supplied OpenGL drivers. If you reinstall your graphics drivers after the update, then the problem should go away. Cheers, Warren -- mailto:war...@delanoscientific.com Warren L. DeLano, Ph.D. Principal Scientist DeLano Scientific LLC Voice (650)-346-1154 Fax (650)-593-4020 -Original Message- From: pymol-users-ad...@lists.sourceforge.net [mailto:pymol-users-ad...@lists.sourceforge.net] On Behalf Of Michael Banck Sent: Tuesday, May 11, 2004 3:38 PM To: pymol-users@lists.sourceforge.net Cc: rbax...@uchicago.edu Subject: Re: [PyMOL] GLX error On Tue, May 11, 2004 at 05:18:37PM -0500, rbax...@uchicago.edu wrote: I am running Pymol 0.95 on Mandrake Linux 10.0, or at least I was until today. Yesterday I performed a standard update on the system, and today pymol crashes with the following error: GLUT: Fatal Error in pymol.exe: OpenGL GLX extension not supported by display: :0.0 PyMOL: abrupt program termination. That looks like a problem with your XServer not supporting OpenGL/GLX/3D stuff in general, not something specific to pymol. Try running 'glxgears' or any other OpenGL application, does that work? Michael --- This SF.Net email is sponsored by Sleepycat Software Learn developer strategies Cisco, Motorola, Ericsson Lucent use to deliver higher performing products faster, at low TCO. http://www.sleepycat.com/telcomwpreg.php?From=osdnemail3 ___ PyMOL-users mailing list PyMOL-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/pymol-users
