Re: [modeller_usage] read_al_373E> Protein specified in ALIGN_CODES(i) was not found in the alignment file

[Andrea Spinelli <>]

Thank you.

I resolved the problem.

Thank you very much.

Andrea


On 16/01/2018 20:58, Modeller Caretaker wrote:
> On 01/13/2018 11:05 AM, Andrea Spinelli wrote:
> > I try to use python3, but it doesn't working.
> >
> > I can't understand why if I use my modeller module file in python 
> > command prompt, it works. If I use the function in a script, not. 
>
> You have an elementary Python error in your script - not a Modeller 
> problem. Your pir_export function never closes its file handle, so the 
> alignment file is empty until the handle is flushed (at the end of the 
> script, too late for Modeller). Simple solution would be to replace 
> "pir_file.close" with "pir_file.close()". A better solution would be 
> to use 'with' to open your file, as per 
> https://jeffknupp.com/blog/2016/03/07/python-with-context-managers/
>
>     Ben Webb, Modeller Caretaker