[PyMOL] recover of button window in v. 097

2004-10-08 Thread Milton H. Werner, Ph.D.
Hi, On Mac OS X.3, I inadvertently closed the tool bar window, which now works under Mac OSX. I don't see any way to reopen that window and now can only operate with the graphics window. Please advise. Milton -- Associate Professor and Head, Laboratory of Molecular Biophysics The Rockefelle

Re: [PyMOL] Help/suggestions for illustrating lattice arrangement

2004-10-08 Thread Peter Haebel
Hi Roger, the easiest solution is probably to create a fake pdb file with dummy atoms (located roughly in the center of mass) to represent each molecule in your ASU. make sure the pdb file contains the same CRYST entry as your original file. you can load it into pymol and then scale up the ato

Re: [PyMOL] Help/suggestions for illustrating lattice arrangement

2004-10-08 Thread Tsjerk Wassenaar
Hi Roger, Unfortunately, there is no CGO ellipsoid. What you might try is represent the units in the lattice as arrows as to indicate their orientation (determined as the principal or principle ;) axis), and have one unit in (cartoon) detail, with a more slender arrow inside. I think it would

Re: [PyMOL] rtools from .pml scripts

2004-10-08 Thread Kristian Rother
Dear Jacob and Andreas, The PyMOL launching procedure occurs IMO in three steps: 1) Start main PyMOL window and command processor 2) Start floating Tk window 3) Start plugins (it should be similar when you use PyMOL in batch mode). Thus, it may occur that commands from your .pml scripts are exec