risk-network 0.0.9b41__tar.gz → 0.0.9b43__tar.gz

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Files changed (47) hide show
  1. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/PKG-INFO +1 -1
  2. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/__init__.py +1 -1
  3. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/annotations/annotations.py +5 -23
  4. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk_network.egg-info/PKG-INFO +1 -1
  5. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/LICENSE +0 -0
  6. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/MANIFEST.in +0 -0
  7. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/README.md +0 -0
  8. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/pyproject.toml +0 -0
  9. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/annotations/__init__.py +0 -0
  10. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/annotations/io.py +0 -0
  11. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/log/__init__.py +0 -0
  12. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/log/console.py +0 -0
  13. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/log/parameters.py +0 -0
  14. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/neighborhoods/__init__.py +0 -0
  15. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/neighborhoods/api.py +0 -0
  16. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/neighborhoods/community.py +0 -0
  17. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/neighborhoods/domains.py +0 -0
  18. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/neighborhoods/neighborhoods.py +0 -0
  19. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/network/__init__.py +0 -0
  20. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/network/geometry.py +0 -0
  21. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/network/graph/__init__.py +0 -0
  22. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/network/graph/api.py +0 -0
  23. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/network/graph/graph.py +0 -0
  24. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/network/graph/summary.py +0 -0
  25. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/network/io.py +0 -0
  26. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/network/plotter/__init__.py +0 -0
  27. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/network/plotter/api.py +0 -0
  28. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/network/plotter/canvas.py +0 -0
  29. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/network/plotter/contour.py +0 -0
  30. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/network/plotter/labels.py +0 -0
  31. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/network/plotter/network.py +0 -0
  32. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/network/plotter/plotter.py +0 -0
  33. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/network/plotter/utils/colors.py +0 -0
  34. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/network/plotter/utils/layout.py +0 -0
  35. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/risk.py +0 -0
  36. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/stats/__init__.py +0 -0
  37. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/stats/permutation/__init__.py +0 -0
  38. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/stats/permutation/permutation.py +0 -0
  39. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/stats/permutation/test_functions.py +0 -0
  40. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/stats/significance.py +0 -0
  41. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/stats/stat_tests.py +0 -0
  42. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk_network.egg-info/SOURCES.txt +0 -0
  43. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk_network.egg-info/dependency_links.txt +0 -0
  44. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk_network.egg-info/requires.txt +0 -0
  45. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk_network.egg-info/top_level.txt +0 -0
  46. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/setup.cfg +0 -0
  47. {risk_network-0.0.9b41 → risk_network-0.0.9b43}/setup.py +0 -0
{risk_network-0.0.9b41 → risk_network-0.0.9b43}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.2
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  Name: risk-network
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- Version: 0.0.9b41
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+ Version: 0.0.9b43
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  Summary: A Python package for biological network analysis
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  Author: Ira Horecka
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  Author-email: Ira Horecka <ira89@icloud.com>
{risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/__init__.py RENAMED
@@ -7,4 +7,4 @@ RISK: Regional Inference of Significant Kinships
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  from risk.risk import RISK
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- __version__ = "0.0.9-beta.41"
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+ __version__ = "0.0.9-beta.43"
{risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk/annotations/annotations.py RENAMED
@@ -19,30 +19,12 @@ from nltk.tokenize import word_tokenize
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  from risk.log import logger
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  from scipy.sparse import coo_matrix
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+ # Add the local NLTK data path to the system path
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+ nltk.data.path.append("nltk_data")
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- def _setup_nltk():
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- """Ensure necessary NLTK data is downloaded."""
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- try:
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- nltk.data.find("tokenizers/punkt")
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- except LookupError:
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- # Force download if not found
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- nltk.download("punkt", force=True)
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-
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- try:
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- nltk.data.find("corpora/stopwords")
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- except LookupError:
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- nltk.download("stopwords", force=True)
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-
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- try:
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- nltk.data.find("corpora/wordnet")
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- except LookupError:
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- nltk.download("wordnet", force=True)
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-
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-
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- # Ensure you have the necessary NLTK data
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- _setup_nltk()
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- # Use NLTK's stopwords
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- STOP_WORDS = set(stopwords.words("english"))
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+ # Use NLTK's stopwords - load all languages
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+ STOP_WORDS = set(word for lang in stopwords.fileids() for word in stopwords.words(lang))
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+ # Initialize the WordNet lemmatizer, which is used for normalizing words
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  LEMMATIZER = WordNetLemmatizer()
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{risk_network-0.0.9b41 → risk_network-0.0.9b43}/risk_network.egg-info/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.2
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2
  Name: risk-network
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- Version: 0.0.9b41
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+ Version: 0.0.9b43
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4
  Summary: A Python package for biological network analysis
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5
  Author: Ira Horecka
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  Author-email: Ira Horecka <ira89@icloud.com>
{risk_network-0.0.9b41 → risk_network-0.0.9b43}/LICENSE RENAMED
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