Long processing time/empty error files -- DIA search

[miano-fc]

Describe the bug
Processing time for a 120 GB dataset has been unexpectedly long (10 days). 8 error .txt files were produced during the DIA library search stage but contain no content.

To Reproduce
Steps to reproduce the behavior:

1. Start MQ as a SLURM job

Expected behavior
Expected MQ to complete analysis in under 60 hours, based on Table 3 from Tyanova, et al 2016.

Screenshots
If applicable, add screenshots to help explain your problem.

Desktop (please complete the following information):

• OS: Ubuntu
• Version: 22.04.4 LTS
• SLURM job, 256 GB RAM, 32 CPU cores (AMD Genoa 9554) allocated

Additional context

• 120 GB dataset consisting of 12 .raw files about 10 GB in size each. Files were organized into two experiments.
• Variable modifications:
  o Acetylation (+42.01056) on protein N-terminus
  o Oxidation (+15.99491) on M
  o Deamidation (+0.98402) on N

[WalterViegener]

Dear miano-fc,
Please retry that with our most recent version 2.6.6 and let us know if the error persists.

Best,
Walter

[miano-fc]

Hi Walter,

The blank errors and long processing times persist after updating to version 2.6.6.

Best,

Michael