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Proteobench / ProteoBench

ProteoBench is an open and collaborative platform for community-curated benchmarks for proteomics data analysis pipelines. Our goal is to allow a continuous, easy, and controlled comparison of proteomics data analysis workflows. https://proteobench.cubimed.rub.de/
https://proteobench.readthedocs.io
Apache License 2.0
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issue with alphapept parameter parsing #310

Closed mlocardpaulet closed 4 months ago

mlocardpaulet commented 4 months ago

Describe the bug I have an error message when I upload the .yaml file from and alphapept file for public upload. Everything before this worked out well.

To Reproduce Steps to reproduce the behavior:

  1. Parse and bench an alphapept results_peptide.csv output file
  2. the plot loads nicely
  3. Scroll down to public upload, and load the .yaml corresponding to the search (I also tried the results.yaml without success)
  4. See error (screenshot below)

Expected behavior the parameter files should be parsed for public uploac

Screenshots image

I can provide a zip with the associated files :)

enryH commented 4 months ago

It is not a parsing error directly, but an Error with the loading the file. It's probably a regression due to that i added for FragPipe the possibility to upload more than one file... If we are back to one configuration file to parse, we could revert that change...

It could be that other tools are also affected. I'll provide a fix soon.