Task failed

[cksakura]

Please see the following information:

An exception occured running AlphaPept version 0.5.1:

....................................................

can only concatenate str (not "int") to str

2023-12-01 12:07:29> Traceback
Traceback (most recent call last):
File "C:\Users\kchen2\AppData\Local\anaconda3\envs\alphapept\lib\site-packages\alphapept_main_.py", line 12, in main
alphapept.interface.run_cli()
File "C:\Users\kchen2\AppData\Local\anaconda3\envs\alphapept\lib\site-packages\alphapept\interface.py", line 1409, in run_cli
cli_overview()
File "C:\Users\kchen2\AppData\Local\anaconda3\envs\alphapept\lib\site-packages\click\core.py", line 1157, in call
return self.main(*args, **kwargs)
File "C:\Users\kchen2\AppData\Local\anaconda3\envs\alphapept\lib\site-packages\click\core.py", line 1078, in main
rv = self.invoke(ctx)
File "C:\Users\kchen2\AppData\Local\anaconda3\envs\alphapept\lib\site-packages\click\core.py", line 1688, in invoke
return process_result(sub_ctx.command.invoke(sub_ctx))
File "C:\Users\kchen2\AppData\Local\anaconda3\envs\alphapept\lib\site-packages\click\core.py", line 1434, in invoke
return ctx.invoke(self.callback, **ctx.params)
File "C:\Users\kchen2\AppData\Local\anaconda3\envs\alphapept\lib\site-packages\click\core.py", line 783, in invoke
return callback(*args, **kwargs)
File "C:\Users\kchen2\AppData\Local\anaconda3\envs\alphapept\lib\site-packages\alphapept\interface.py", line 1560, in cli_workflow
run_complete_workflow(settings, progress = progress)
File "C:\Users\kchen2\AppData\Local\anaconda3\envs\alphapept\lib\site-packages\alphapept\interface.py", line 1014, in run_complete_workflow
settings = step(settings, logger_set = True, settings_parsed = True, callback = cb)
File "C:\Users\kchen2\AppData\Local\anaconda3\envs\alphapept\lib\site-packages\alphapept\interface.py", line 786, in quantification
m.columns = [col + for _ in m.columns]
File "C:\Users\kchen2\AppData\Local\anaconda3\envs\alphapept\lib\site-packages\alphapept\interface.py", line 786, in
m.columns = [col +_ for _ in m.columns]
TypeError: can only concatenate str (not "int") to str

[straussmaximilian]

Hi, could you provide more context what you tried?
Just tried with a fresh install and couldn't find any obvious errors.
Thanks!

[cksakura]

Hello, thank you for your response.
Please find the attached files for more information.

alphapept_result.zip

[straussmaximilian]

Okay it looks like it searched the file and got some 200 proteins.
Did you use the Gui? If so, could you share the logfile?
Could you also share the raw file and the .fasta file so that I can run it and try to reproduce the issue?

[cksakura]

Hello, I'm using the CMD directly. I copied all the information to a log file. Please find the attachment.
How can I share the raw file and the .fasta file?
Thank you.
log.txt

[straussmaximilian]

Here would be an anonymous upload to share the files:
https://datashare.biochem.mpg.de/s/8LWBwNfX6S8RVK6

From the log it looks like it went through fine but hat had some issues writing the proteins...

[cksakura]

Thank you for your help. I have uploaded one raw file and the database. Maybe the problem is about the protein inference. Because it's a microbiome database, a peptide could be mapped to hundreds of proteins.