mfG is just German way of saying best regards
Dear MfG, formerly known as Holfelder, here's an expanded script:
#orient molecule at this point as you desire
for i in range (2,10001): \cmd.super("x_%d" %i, "x_1") \
cmd.load("x_%d.pdb" %i) \
cmd.png("x_%05d" %i) \
cmd.disable("x_%d" %i) # or cmd.delete("x_%d" %i)
If you put the script into a file and load the orientation of the first molecule before the first ray-tracing, you can execute it remotely without the interface on the fastest machine (pymol -qc script.py). This will be much quicker. Assemble the png files into a movie with Quicktime Pro or Adobe Premier or mencoder (see PyMOL Wiki).
On 10/07/2011 6:18, Babban Mia wrote:
Thanks a lot Andrea and Michael
So this would align/super impose all the other pdbs wrt the first PDB.
How Do I make a movie of that ?
I want to be able to show this "blob" of structures(obtained after
aligning) from different angles and by rotation.
I guess I would use the mset command,Would it work ?
Please also show me how to incorporate the zoom command in the python
script so that the structures look well small and not enlarged and extended.