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@RalfG RalfG released this 24 Jul 21:35
v4.0.1
7d2abba
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Learn about vigilant mode.

Changed

  • deeplc feature generator: deeplc_retrain option renamed to finetune (redundant naming, already scoped under deeplc). The old name is still accepted but deprecated, and emits a warning.
  • Docs: Extend docs with migration guide; add more details to CONTRIBUTING.rst; update changelog with past releases; consolidate v4.0.0 alpha and stable release changelogs.
  • Dependencies: Bump DeepLC dependency to stable v4.0.0; rely on uv.lock for installer versions instead of explicitly duplicated pins.

Fixed

  • Removed stale ms2_tolerance option from the default ms2pip feature generator configuration, schema, and example configs. Fragment tolerance is configured centrally via the top-level tolerance_value/tolerance_mode options; MS2PIPFeatureGenerator no longer accepts
    ms2_tolerance.
  • Documented model_dir (ms2pip feature generator) in the configuration schema; it already worked but was missing from the schema.
  • Corrected the configuration schema's default for im2deep's reference_dataset, which incorrectly claimed "Meier_unimod.parquet". The actual default falls through to IM2Deep's own bundled reference dataset.
  • FixReadTheDocs build by removing placeholder link that was being interpreted as cross-reference.
  • Fixed missing feature-weights chart in HTML report.

All changes: v4.0.0...v4.0.1

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