Re: [PyMOL] Installation PyMOL failure in Linux (CentOS)

Hi Masataka, this is really a weird problem. I have none of CentOS, gcc45 or python2.4 so can't really simulate any of your setup. But from the message I would say it's related to the C preprocessor rather than the compiler or python itself. Also, a google search pointed me to this messages:

[PyMOL] frames around code in PyMOLWiki

can we have frames around code blocks like before? Or am I the only one who misses them? Cheers, Thomas -- Thomas Holder MPI for Developmental Biology Spemannstr. 35 D-72076 Tübingen -- All the data continuously

Re: [PyMOL] Installation PyMOL failure in Linux (CentOS)

Dear Masataka, a few months ago, I upgraded most of our computers from RHEL 5.x to 6.1. If version 6 of CentOS (free RHEL clone) is out, I would highly recommend, no I would urge you, to upgrade as well. RHEL and CentOS are rock-solid operating systems, but their libraries and dependencies

Re: [PyMOL] frames around code in PyMOLWiki

Thanks, Jason! Now it has borders, but no padding and background color and thus looks squeezed. I don't care how the exact look will be, but I'd like to see code containers more accentuated if possible. User css seems not to be enabled in the PyMOLWiki, right?

Re: [PyMOL] Select smart

Hi Troels, Jason - I've often wondered about these as well, so I've just updated the wiki page http://www.pymolwiki.org/index.php/Single-word_Selectors#More_selectors to reflect the single-word selectors from Selector.c. I think I got them all, but feel free to double check! Cheers, --

[PyMOL] Electron Density

Is there some way to show electron density at 6 sigma and above in pymol especially for metal ions like in Coot? Manas -- All the data continuously generated in your IT infrastructure contains a definitive record of

Re: [PyMOL] Electron Density

I have tried that...but i can see the density in coot at even 8 sigma.. however the maximum i can go to in pymol is 4.5 simga on a F0-Fc map Can u suggest any method to see the same density at 6 sigma Manas On Mon, Dec 5, 2011 at 11:14 PM, Pete Meyer pame...@mcw.edu wrote: isomesh [mesh

Re: [PyMOL] Electron Density

isomesh [mesh name], [map name], 6.0 Manas Sule wrote: Is there some way to show electron density at 6 sigma and above in pymol especially for metal ions like in Coot? Manas -- All the data continuously

Re: [PyMOL] Electron Density

Hi Manas, You have two options: use volumes (http://www.youtube.com/watch?v=tuAo_8-_HIc; http://pymol.org/volume) or isomesh myMesh, theMap, level=6 To change the isomesh level to 7.5 just do, isolevel myMesh, 7.5 Cheers, -- Jason On Mon, Dec 5, 2011 at 12:49 PM, Manas Sule

Re: [PyMOL] Electron Density

I think the isomesh command will let you set whatever contour level you wish, e.g.: isomesh map, mymap.map, X.X, maparea Where map is the name of the mesh object, mymap.map is the map file name, X.X is the desired contour level, and maparea, is the

Re: [PyMOL] Select smart

Hi Jared. That is so cool! I missed that feature :-) Best T 2011/12/5 Sampson, Jared jared.samp...@nyumc.org Hi Troels, Jason - I've often wondered about these as well, so I've just updated the wiki page http://www.pymolwiki.org/index.php/Single-word_Selectors#More_selectorsto