RE: [PyMOL] new user

2003-01-14 Thread DeLano, Warren
> From: Nukri Sanishvili [mailto:rsanishv...@anl.gov] > There is a new thing (I'm pretty sure it's a bug, not a > feature) in 0.86: > When I Tab for command completion, the command ends with a > comma when in > fact = is expected. For example, set cartoon_fl(Tab)at_sheets, not set > cartoon_fl(

RE: [PyMOL] how to control the density coverage in pymol

2003-01-14 Thread Schubert, Carsten
Rongjin, this works for me. You have to specify either buffer or carve with "named variables" (hope that is the right term). inh1 is the selection I defined the map to be centered on. # load maps load 2fofc.ccp4, 2fofc_map load fofc.ccp4, fofc_map isomesh 2fofc, 2fofc_map, 1.4, inh1, carve=2 co

[PyMOL] how to control the density coverage in pymol

2003-01-14 Thread Rongjin Guan
Hi, all, I am new to this BB. In O we can use something like "map_cover object radius" to only display the density aroung the part model we are interested, and get rid of other densities neaby to make the figure "clean". But in PyMOL, I tried "insomesh den, map1, 1.0, (i;8,9), 3.0" to try to only d

[PyMOL] new user

2003-01-14 Thread Nukri Sanishvili
Hi all, I just installed PyMol last week on my Linux and PC and laptop and I love it! And v0.86 is of course better with its session-saving capability. There is a new thing (I'm pretty sure it's a bug, not a feature) in 0.86: When I Tab for command completion, the command ends with a comma w

[PyMOL] 0.86 session files and Ribbons-like RNA representation

2003-01-14 Thread Luca Jovine
Hello PyMOLers, These are maybe things only Warren will know, but other people might have some ideas: 1) It's really useful to be able to save sessions - thanks Warren! But why are .pse files created by PyMOL so big? (well, relatively speaking, that is!). Even when working with a single norm

Re: [PyMOL] help compiling pymol on OSX

2003-01-14 Thread Luca Jovine
Craig, You'll have to install not only X11, but also its SDK. Go to: http://www.apple.com/macosx/x11 then scroll to the bottom of the page, and on the right hand side you'll see a small box with the title "Developer’s Kit"; inside this box are links to both of the installers you need.

[Fwd: [PyMOL] Apple new version X11]

2003-01-14 Thread Richard Gillilan
Richard Gillilan wrote: Sorry, intended this to go out to the whole group. Here goes again: > > Craig Smith wrote: > > > > I've installed X11 server through XDarwin. Will the installation of > > PyMOL for OS X described on your web page work with XDarwin's > > implementation of X11 or do I hav