[PyMOL] Align output

2008-02-21 Thread Sadler, Evan
I know in the past this question was to be addressed in a future version. Anyway, after aligning two structures, is there a way to dump out the sequence alignment (i.e., as a msf file) or is the alignment display onscreen the only way to see it? Evan Sadler -- J. Evan Sadler, M.D., Ph.D. Howard

[PyMOL] Scripts on Mac

2008-02-28 Thread Sadler, Evan
I can run scripts by pasting them, but they fail when I try to read them from a file, as in: PyMOL> run ~/scriptfolder/rasmolify.py This generates lots of errors: Traceback (most recent call last): File "/Applications/MacPyMOL.app/pymol/modules/pymol/parser.py", line 333, in parse parsing.run

Re: [PyMOL] Scripts on Mac

2008-02-29 Thread Sadler, Evan
it def exit(): cmd.quit() cmd.extend("exit", exit) Any part of it works fine when pasted, but no part works when invoked by "run..." Evan On 2/28/08 10:02 PM, "gilleain torrance" wrote: Hmm. Running scripts has always worked for me on a mac. Could it be a tab/