Re: [PyMOL] compiling pymol on Mac intel

Alan, Okay, I found the glitch with the OSX defines -- my bad. However, I also rediscovered what the hidden difficultly is with compiling PyMOL under X11, and that is: Mac OS X's built-in python has an Aqua-based Tcl/Tk/Tkinter implementation NOT bound to X11 and which does not work with PyMOL du

Re: [PyMOL] compiling pymol on Mac intel

Alan, Hmm...the Darwin "setup.py" build is definitely broken...I'll need to look into why -- it shouldn't be trying to link to any MacPyMOL symbols (MacPyMOL is beyond the scope of the open-source project). In the meantime, you can probably try an in-place autotools-based compile instead. ./co

Re: [PyMOL] Sticks and distances with individual transparencies

Tsjerk, Sometimes the archives can be misleading... Actually, settings do now work on selections and bonds as well (with set_bond). However, only a small set of per-atom and per-bond settings are currently implemented, since each can require a significant amount of new code. Cheers, Warren > -

Re: [PyMOL] How to dislocate independently each structure when you have loaded two structures?

* Andreas Henschel [2007-06-27 15:49] wrote: > Hi Julio, > > If I understood you right, you can simply use translate, eg.: > translate [20,0,0], mol_to_dislocate > > The important thing is that "turn" and "move" modify the camera, while > translate and rotate modify the coordinates. > > Cheers

Re: [PyMOL] spectral coloring

Am Mittwoch, 27. Juni 2007 schrieb Robert Campbell: Hey Robert, > You are welcome to modify it to add new features, of course. You can > find it at: > >http://pldserver1.biochem.queensu.ca/~rlc/work/pymol/color_b.py I found it this morning via google and the pictures are now really great. If

Re: [PyMOL] How to dislocate independently each structure when you have loaded two structures?

Hi Julio, If I understood you right, you can simply use translate, eg.: translate [20,0,0], mol_to_dislocate The important thing is that "turn" and "move" modify the camera, while translate and rotate modify the coordinates. Cheers, Andreas Júlio César wrote: Hi, I have loaded two structu

[PyMOL] How to dislocate independently each structure when you have loaded two structures?

Hi, I have loaded two structure and tried to dislocate one independent on the other, but I couldn't. Is it possible to do thit? I would like to know how to dislocate independently each structure when you have loaded two structures? Thanks, Julio Cesar da Silva -- SAXS / Studi

Re: [PyMOL] coloring based on sequence identity

* Martin Höfling [2007-06-27 01:33] wrote: > Am Dienstag, 26. Juni 2007 schrieb Eva Vanamee: > > Hi, > > > > I'd like to color a molecule based on its sequence similarity to another > > molecule. > > Can this be done in Pymol? > > If you can quantify "similarity" in a number you can write it into

Re: [PyMOL] spectral coloring

Hi Martin, * Martin Höfling [2007-06-26 15:15] wrote: > Hi there, > > i am trying to map b factors on a surface representation. > > I am using spectrum b,blue_white_red,mymol and the colors are fine. Is there > a > way to fine tune the color spectrum, such as with the "Midpoint" and "Offset

[PyMOL] compiling pymol on Mac intel

Hi List! I am trying to compile pymol via 2 ways on my Macbook pro Intel: 1) Via fink: fink install pymol-py24 (installs version 0.99-1005) All seems to be ok, but when running /sw/lib/pymol-py24/bin/pymol, I got this: X Error of failed request: BadAlloc (insufficient resources for operation)