phylogenie 2.1.29__tar.gz → 2.1.30__tar.gz

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (38) hide show
  1. {phylogenie-2.1.29 → phylogenie-2.1.30}/PKG-INFO +1 -1
  2. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/io/nexus.py +3 -2
  3. {phylogenie-2.1.29 → phylogenie-2.1.30}/pyproject.toml +1 -1
  4. {phylogenie-2.1.29 → phylogenie-2.1.30}/LICENSE.txt +0 -0
  5. {phylogenie-2.1.29 → phylogenie-2.1.30}/README.md +0 -0
  6. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/__init__.py +0 -0
  7. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/draw.py +0 -0
  8. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/generators/__init__.py +0 -0
  9. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/generators/alisim.py +0 -0
  10. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/generators/configs.py +0 -0
  11. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/generators/dataset.py +0 -0
  12. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/generators/factories.py +0 -0
  13. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/generators/trees.py +0 -0
  14. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/generators/typeguards.py +0 -0
  15. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/io/__init__.py +0 -0
  16. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/io/fasta.py +0 -0
  17. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/io/newick.py +0 -0
  18. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/main.py +0 -0
  19. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/models.py +0 -0
  20. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/msa.py +0 -0
  21. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/py.typed +0 -0
  22. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/skyline/__init__.py +0 -0
  23. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/skyline/matrix.py +0 -0
  24. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/skyline/parameter.py +0 -0
  25. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/skyline/vector.py +0 -0
  26. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/tree.py +0 -0
  27. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/treesimulator/__init__.py +0 -0
  28. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/treesimulator/events/__init__.py +0 -0
  29. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/treesimulator/events/base.py +0 -0
  30. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/treesimulator/events/contact_tracing.py +0 -0
  31. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/treesimulator/events/core.py +0 -0
  32. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/treesimulator/events/mutations.py +0 -0
  33. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/treesimulator/features.py +0 -0
  34. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/treesimulator/gillespie.py +0 -0
  35. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/treesimulator/model.py +0 -0
  36. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/typeguards.py +0 -0
  37. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/typings.py +0 -0
  38. {phylogenie-2.1.29 → phylogenie-2.1.30}/phylogenie/utils.py +0 -0
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.1
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  Name: phylogenie
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- Version: 2.1.29
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+ Version: 2.1.30
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  Summary: Generate phylogenetic datasets with minimal setup effort
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  Author: Gabriele Marino
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  Author-email: gabmarino.8601@gmail.com
@@ -9,12 +9,13 @@ from phylogenie.tree import Tree
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  def _parse_translate_block(lines: Iterator[str]) -> dict[str, str]:
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  translations: dict[str, str] = {}
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  for line in lines:
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- match = re.match(r"\s*(\d+)\s+['\"]?([^'\",;]+)['\"]?", line)
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+ line = line.strip()
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+ match = re.match(r"(\d+)\s+['\"]?([^'\",;]+)['\"]?", line)
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  if match is None:
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  if ";" in line:
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  return translations
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  else:
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- raise ValueError(f"Invalid translate line: {line.strip()}")
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+ raise ValueError(f"Invalid translate line: {line}")
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  translations[match.group(1)] = match.group(2)
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  raise ValueError("Translate block not terminated with ';'")
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@@ -1,6 +1,6 @@
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  [tool.poetry]
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  name = "phylogenie"
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- version = "2.1.29"
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+ version = "2.1.30"
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  description = "Generate phylogenetic datasets with minimal setup effort"
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  authors = ["Gabriele Marino <gabmarino.8601@gmail.com>"]
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  readme = "README.md"
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