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v0.9.4

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@github-actions github-actions released this 31 May 10:44

Added

  • classes_ property to TypeClassifier to access the classes_ attribute of the TypeBinarizer.
  • Alternative ORF finder CDSFinder which simply extracts CDS features from input sequences (#8).
  • Support for annotating domains with "exclusive" HMMs to annotate genes with at most one HMM from the library.

Changed

  • ProductType is not restricted to MIBiG types anymore and can support any string as a base type identifier.
  • PyrodigalFinder now uses multiprocessing.pool.ThreadPool instead of custom thread code thanks to OrfFinder.find_genes reentrancy introduced in Pyrodigal v1.0.
  • PyrodigalFinder can now be used in single / non-meta mode from the API.
  • BUmped minimum rich version to 12.3 to use None total in progress bars when the size of an HMM library is unknown.

Fixed

  • Broken MyPy type annotations in the gecco.model and gecco.cli modules.