Re: [PyMOL] Align in PyMOL via Python script

[Tamas H. <bio...@gm...>]

Hi,


You probably use the script version. In this case you have to use "print"


cmd: align x, y

output: ... Executive: RMSD =    4.030 (10847 to 10847 atoms)


cmd: print(cmd.align("x", "y"))
output: 
(4.0296430587768555, 10847, 5, 24.87837028503418, 13476, 1234.0, 1192)


Bests, Tamas


On 2023. 03. 02. 8:54, Irwin Selvam wrote:
> Hi,
>
> I would like to run the Align Python script found on the Align page of 
> the PyMOLwiki (https://pymolwiki.org/index.php/Align). I've tweaked it 
> slightly for my uses and it seems to run fine on PyMOL 2.5.0 but 
> according to the wiki it should output a list of results (RMSD etc) in 
> the internal feedback (or command prompt?), but it doesn't in my case. 
> Does anyone know why? It does seem like there some missing lines to 
> the script in order to achieve this. Apologies for the basic question!
>
> All the best,
>
> Irwin
>
>
>
>
>
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