RE: [PyMOL] That _cmd thing

Altro, Thanks for the follow up -- you make some valid points. As for compilation, the current Makefiles are complex and primarily exist to support automated incremental compilation during development. Use Python's distutils for normal deployments: path-to-your-python/bin/python setup.py bu

RE: [PyMOL] how link Pymol to an other program

Hi Pierre, Take a look at some of the wizard code (pymol/modules/pymol/wizard/*.py) for examples on how to capture and respond to selection "events" in the 3D viewer. Cheers, Warren -- Warren L. DeLano, Ph.D. Principal Scientist . DeLano Scientific LLC . 400 Oyster Point

RE: [PyMOL] scene/append

Strange -- I can't reproduce this problem. Are you remembering to hold down the "fn"-key on the PowerBook while pressing the up or down arrow (for PGUP or PGDN)? Cheers, Warren -- Warren L. DeLano, Ph.D. Principal Scientist . DeLano Scientific LLC . 400 Oyster Point Blv

[PyMOL] RMS of two small molecules

Hi, lets say I have a set of docked conformations and want to compare them with the conformation observed in a crystal structure (aka redocking). How can I get pymol to calculate RMS values for pairs of small molecules that probably don't have the same numbering? For now I tried to use the rms_c