Re: [PyMOL] a scaling question

Hi Fei, * Fei Xu [2006-04-19 11:55] wrote: > Hi!: > I met a scaling problem. > I created many pdb files along one trajectory of DNA movement. I loaded > each pdb file in pymol to create a picture, that is, one frame of the > trajectory. Pymol shows each molecule in an optimal size automatically >

Re: [PyMOL] pymol transitions recorded as movie?

Hi Eva, If you save your scenes (conformations) as a psw file (under save as) you can then use a hyperlink in powerpoint and this will launch pymol in presentation mode and you can just use page down to scroll through the scenes. Pymol is still active so you can rotate the molecules in the pr

RE: [PyMOL] importing pymol modules in a python script

Alan, The only sure way to get this to work is to build into a local Python interpreter from PyMOL source code using distutils. Otherwise, you're likely better off with "pymol -qc" Cheers, Warren -- Warren L. DeLano, Ph.D. Principal Scientist . DeLano Scientific LLC .

Re: [PyMOL] ..and rotate

orla, If in fact you actually have to move molecules independently using the 'dirty' method that I have suggested, you will probably need the rotate command too, for more flexibility in setting things up. rotate DESCRIPTION "rotate" can be used

[PyMOL] pymol transitions recorded as movie?

I regularly use the F function keys in PyMol to store conformations and call them back in a presentation. I really like the transition effects. Is it possible to record those transitions as a movie and use them in a Powerpoint presentation? Thanks in advance, - Eva

Fw: [PyMOL] translation

orla, not actually had to do this, but I think you can try the translate command. -- translate DESCRIPTION "translate" can be used to translate the atomic coordinates of a molecular object. Behavior differs depending on whether or not the "

Re: [PyMOL] mutations

I follow the method outlined by Nick with one additional step, after selecting the new residue you can run through a sidechain rotamer library using the forward arrows at the bottom of the window. You also have a choice to use backbone dependant or backbone independant rotamers. Andrew On 4/18/0

[PyMOL] importing pymol modules in a python script

Hello List! I want a python script likewise: #!/usr/bin/python -O import sys, tempfile from pymol import editor from pymol import cmd However, even defining 'export PYTHONPATH=/usr/local/pymol/modules' I got this error: from pymol import editor File "/usr/local/pymol/modules/pym

[PyMOL] (no subject)

Hi all This probably a very stupid question but its driving me mad. I have produced two Raster 3D scences using molscript and have loaded them into pymol. What I want to do is to be able to move them on screen independent of each other. Is this possible? Regards Orla Dr.Orla O'Sulli

Re: [PyMOL] (small) Pymol feature request--filter for edit settings window

Hello Michelle, You can also edit the SetEditor.py file. The file is in the '/usr/lib/python2.3/site-packages/pmg_tk' directory on linux and add the feature. It can be done by adding to small portion of add-on code to the file. If you do so: Keep a copy of the original file in a safe place !

Re: [PyMOL] (small) Pymol feature request--filter for edit settings window

Hello Michelle, You can also edit the SetEditor.py file. The file is in the '/usr/lib/python2.3/site-packages/pmg_tk' directory on linux and add the feature. It can be done by adding to small portion of add-on code to the file. If you do so: Keep a copy of the original file in a safe place !