bella-companion 0.0.46__tar.gz → 0.0.47__tar.gz

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  1. {bella_companion-0.0.46 → bella_companion-0.0.47}/PKG-INFO +1 -1
  2. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/run_beast.py +4 -4
  3. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion.egg-info/PKG-INFO +1 -1
  4. {bella_companion-0.0.46 → bella_companion-0.0.47}/pyproject.toml +1 -1
  5. {bella_companion-0.0.46 → bella_companion-0.0.47}/README.md +0 -0
  6. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/BELLA.jar +0 -0
  7. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/__init__.py +0 -0
  8. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/__pycache__/__init__.cpython-310.pyc +0 -0
  9. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/__pycache__/cli.cpython-310.pyc +0 -0
  10. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/cli.py +0 -0
  11. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/__init__.py +0 -0
  12. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/__pycache__/__init__.cpython-310.pyc +0 -0
  13. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/__pycache__/run_beast.cpython-310.pyc +0 -0
  14. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/beast_configs/GLM.xml +0 -0
  15. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/beast_configs/MLP.xml +0 -0
  16. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/beast_configs/Nonparametric.xml +0 -0
  17. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/data/case_data.tsv +0 -0
  18. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/data/change_dates.tsv +0 -0
  19. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/data/msa.fasta +0 -0
  20. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/data/osi.tsv +0 -0
  21. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/data/predictors/all/closedborders_7e_nt.tsv +0 -0
  22. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/data/predictors/all/dist_7e_ls.tsv +0 -0
  23. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/data/predictors/all/flight_7e_ls.tsv +0 -0
  24. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/data/predictors/all/flight_pop_x_7e_ls.tsv +0 -0
  25. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/data/predictors/all/osi_x_7e_ls.tsv +0 -0
  26. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/data/predictors/all/osi_y_7e_ls.tsv +0 -0
  27. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/data/predictors/all/pop_x_7e_ls.tsv +0 -0
  28. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/data/predictors/all/pop_y_7e_ls.tsv +0 -0
  29. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/data/predictors/all/sharedborders_7e_nt.tsv +0 -0
  30. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/data/predictors/changetimes_all_7e.tsv +0 -0
  31. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/data/predictors/changetimes_flights_4e.tsv +0 -0
  32. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/data/predictors/flight_pop_x_4e_ls.tsv +0 -0
  33. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/platyrrhine/__init__.py +0 -0
  34. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/platyrrhine/__pycache__/__init__.cpython-310.pyc +0 -0
  35. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/platyrrhine/__pycache__/results.cpython-310.pyc +0 -0
  36. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/platyrrhine/__pycache__/run_beast.cpython-310.pyc +0 -0
  37. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/platyrrhine/__pycache__/summarize.cpython-310.pyc +0 -0
  38. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/platyrrhine/__pycache__/summarize_logs.cpython-310.pyc +0 -0
  39. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/platyrrhine/beast_config.xml +0 -0
  40. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/platyrrhine/data/change_times.csv +0 -0
  41. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/platyrrhine/data/traits.csv +0 -0
  42. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/platyrrhine/data/trees.nwk +0 -0
  43. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/platyrrhine/results.py +0 -0
  44. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/platyrrhine/run_beast.py +0 -0
  45. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/platyrrhine/summarize.py +0 -0
  46. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/__init__.py +0 -0
  47. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/__pycache__/__init__.cpython-310.pyc +0 -0
  48. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/__pycache__/features.cpython-310.pyc +0 -0
  49. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/__pycache__/generate_data.cpython-310.pyc +0 -0
  50. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/__pycache__/generate_figures.cpython-310.pyc +0 -0
  51. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/__pycache__/metrics.cpython-310.pyc +0 -0
  52. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/__pycache__/run_beast.cpython-310.pyc +0 -0
  53. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/__pycache__/summarize.cpython-310.pyc +0 -0
  54. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/__pycache__/summarize_logs.cpython-310.pyc +0 -0
  55. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/beast_configs/epi-multitype/GLM.xml +0 -0
  56. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/beast_configs/epi-multitype/MLP.xml +0 -0
  57. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/beast_configs/epi-multitype/Nonparametric.xml +0 -0
  58. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/beast_configs/epi-skyline/GLM.xml +0 -0
  59. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/beast_configs/epi-skyline/MLP.xml +0 -0
  60. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/beast_configs/epi-skyline/Nonparametric.xml +0 -0
  61. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/beast_configs/fbd-2traits/GLM.xml +0 -0
  62. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/beast_configs/fbd-2traits/MLP.xml +0 -0
  63. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/beast_configs/fbd-2traits/Nonparametric.xml +0 -0
  64. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/beast_configs/fbd-no-traits/GLM.xml +0 -0
  65. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/beast_configs/fbd-no-traits/MLP.xml +0 -0
  66. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/beast_configs/fbd-no-traits/Nonparametric.xml +0 -0
  67. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/features.py +0 -0
  68. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/__init__.py +0 -0
  69. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/__pycache__/__init__.cpython-310.pyc +0 -0
  70. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/__pycache__/epi_multitype.cpython-310.pyc +0 -0
  71. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/__pycache__/epi_skyline.cpython-310.pyc +0 -0
  72. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/__pycache__/fbd_2traits.cpython-310.pyc +0 -0
  73. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/__pycache__/fbd_no_traits.cpython-310.pyc +0 -0
  74. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/__pycache__/scenarios.cpython-310.pyc +0 -0
  75. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/__pycache__/utils.cpython-310.pyc +0 -0
  76. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/epi_multitype.py +0 -0
  77. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/epi_skyline.py +0 -0
  78. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/explain/__init__.py +0 -0
  79. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/explain/__pycache__/__init__.cpython-310.pyc +0 -0
  80. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/explain/__pycache__/pdp.cpython-310.pyc +0 -0
  81. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/explain/__pycache__/shap.cpython-310.pyc +0 -0
  82. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/explain/pdp.py +0 -0
  83. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/explain/shap.py +0 -0
  84. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/fbd_2traits.py +0 -0
  85. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/fbd_no_traits.py +0 -0
  86. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/scenarios.py +0 -0
  87. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/figures/utils.py +0 -0
  88. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/generate_data.py +0 -0
  89. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/generate_figures.py +0 -0
  90. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/metrics.py +0 -0
  91. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/run_beast.py +0 -0
  92. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/scenarios/__init__.py +0 -0
  93. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/scenarios/__pycache__/__init__.cpython-310.pyc +0 -0
  94. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/scenarios/__pycache__/common.cpython-310.pyc +0 -0
  95. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/scenarios/__pycache__/epi_multitype.cpython-310.pyc +0 -0
  96. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/scenarios/__pycache__/epi_skyline.cpython-310.pyc +0 -0
  97. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/scenarios/__pycache__/fbd_2traits.cpython-310.pyc +0 -0
  98. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/scenarios/__pycache__/fbd_no_traits.cpython-310.pyc +0 -0
  99. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/scenarios/__pycache__/scenario.cpython-310.pyc +0 -0
  100. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/scenarios/common.py +0 -0
  101. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/scenarios/epi_multitype.py +0 -0
  102. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/scenarios/epi_skyline.py +0 -0
  103. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/scenarios/fbd_2traits.py +0 -0
  104. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/scenarios/fbd_no_traits.py +0 -0
  105. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/scenarios/scenario.py +0 -0
  106. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/simulations/summarize.py +0 -0
  107. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/utils/__init__.py +0 -0
  108. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/utils/__pycache__/__init__.cpython-310.pyc +0 -0
  109. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/utils/__pycache__/beast.cpython-310.pyc +0 -0
  110. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/utils/__pycache__/explain.cpython-310.pyc +0 -0
  111. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/utils/__pycache__/slurm.cpython-310.pyc +0 -0
  112. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/utils/beast.py +0 -0
  113. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/utils/explain.py +0 -0
  114. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/utils/slurm.py +0 -0
  115. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/version.xml +0 -0
  116. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion.egg-info/SOURCES.txt +0 -0
  117. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion.egg-info/dependency_links.txt +0 -0
  118. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion.egg-info/entry_points.txt +0 -0
  119. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion.egg-info/requires.txt +0 -0
  120. {bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion.egg-info/top_level.txt +0 -0
  121. {bella_companion-0.0.46 → bella_companion-0.0.47}/setup.cfg +0 -0
{bella_companion-0.0.46 → bella_companion-0.0.47}/PKG-INFO RENAMED
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  Metadata-Version: 2.4
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  Name: bella-companion
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- Version: 0.0.46
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  Summary: Bayesian Evolutionary Layered Learning Architectures (BELLA) companion
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  Requires-Python: >=3.10
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  Description-Content-Type: text/markdown
{bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion/eucovid/run_beast.py RENAMED
@@ -63,7 +63,7 @@ def run_beast():
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  str(beast_configs_dir / "GLM.xml"),
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  ]
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- base_log_dir / "Nonparametric" / str(seed),
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+ base_log_dir / "all-predictors-GLM" / str(seed),
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{bella_companion-0.0.46 → bella_companion-0.0.47}/bella_companion.egg-info/PKG-INFO RENAMED
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  Metadata-Version: 2.4
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  Name: bella-companion
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- Version: 0.0.46
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  Summary: Bayesian Evolutionary Layered Learning Architectures (BELLA) companion
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  Requires-Python: >=3.10
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  Description-Content-Type: text/markdown
{bella_companion-0.0.46 → bella_companion-0.0.47}/pyproject.toml RENAMED
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  [project]
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  name = "bella-companion"
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- version = "0.0.46"
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  description = "Bayesian Evolutionary Layered Learning Architectures (BELLA) companion"
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  readme = "README.md"
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  requires-python = ">=3.10"