Re: [PyMOL] align/fit

[Nat E. <ec...@uc...>]

you can set the number of cycles of refinement on the command line.
change this:

> align 1kjg & i. 1-99 & n. ca, 1kjh & i. 1-99 & n. ca

to this:

> align 1kjg & i. 1-99 & n. ca, 1kjh & i. 1-99 & n. ca, 0, 0

I forget what the first 0 means; the second means "don't refine."  It'll
use all matching atoms this way.