Rescoring with MS2Rescore

--- Resubmitted on 2026-03-30 15:38:32 UTC ---
Changes detected:
  Row count: 60766 → 65553
  Added columns: ['epsilon_precision_mean', 'epsilon_precision_median', 'log2_empirical_mean', 'log2_empirical_median']
  Removed columns: ['logIntensityMean']
Parameter corrections applied:
  second_pass: 'False' → '[MISSING]'
--- PERSISTED_CORRECTIONS ---
CORRECTION:second_pass=[MISSING]
--- END_PERSISTED_CORRECTIONS ---