vivarium-public-health 2.2.1__tar.gz → 2.2.2__tar.gz

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  1. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/CHANGELOG.rst +4 -0
  2. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/PKG-INFO +1 -1
  3. vivarium_public_health-2.2.2/src/vivarium_public_health/_version.py +1 -0
  4. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/population/data_transformations.py +14 -0
  5. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health.egg-info/PKG-INFO +1 -1
  6. vivarium_public_health-2.2.1/src/vivarium_public_health/_version.py +0 -1
  7. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/.gitattributes +0 -0
  8. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/.github/CODEOWNERS +0 -0
  9. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/.github/pull_request_template.md +0 -0
  10. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/.github/workflows/build.yml +0 -0
  11. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/.github/workflows/deploy.yml +0 -0
  12. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/.gitignore +0 -0
  13. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/.pylintrc +0 -0
  14. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/.readthedocs.yml +0 -0
  15. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/.zenodo.json +0 -0
  16. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/CODE_OF_CONDUCT.rst +0 -0
  17. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/CONTRIBUTING.rst +0 -0
  18. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/LICENSE.txt +0 -0
  19. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/MANIFEST.in +0 -0
  20. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/README.rst +0 -0
  21. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/Makefile +0 -0
  22. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/nitpick-exceptions +0 -0
  23. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/_static/style.css +0 -0
  24. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/_templates/layout.html +0 -0
  25. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/disease/index.rst +0 -0
  26. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/disease/model.rst +0 -0
  27. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/disease/models.rst +0 -0
  28. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/disease/special_disease.rst +0 -0
  29. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/disease/state.rst +0 -0
  30. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/disease/transition.rst +0 -0
  31. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/index.rst +0 -0
  32. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/metrics/disability.rst +0 -0
  33. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/metrics/disease.rst +0 -0
  34. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/metrics/index.rst +0 -0
  35. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/metrics/mortality.rst +0 -0
  36. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/metrics/risk.rst +0 -0
  37. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/metrics/stratification.rst +0 -0
  38. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/mslt/delay.rst +0 -0
  39. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/mslt/disease.rst +0 -0
  40. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/mslt/index.rst +0 -0
  41. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/mslt/intervention.rst +0 -0
  42. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/mslt/magic_wand_components.rst +0 -0
  43. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/mslt/observer.rst +0 -0
  44. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/mslt/population.rst +0 -0
  45. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/plugins/index.rst +0 -0
  46. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/plugins/parser.rst +0 -0
  47. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/population/add_new_birth_cohorts.rst +0 -0
  48. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/population/base_population.rst +0 -0
  49. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/population/data_transformations.rst +0 -0
  50. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/population/index.rst +0 -0
  51. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/population/mortality.rst +0 -0
  52. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/risks/base_risk.rst +0 -0
  53. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/risks/data_transformations.rst +0 -0
  54. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/risks/distributions.rst +0 -0
  55. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/risks/effect.rst +0 -0
  56. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/risks/implementations/index.rst +0 -0
  57. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/risks/implementations/low_birth_weight_and_short_gestation.rst +0 -0
  58. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/risks/index.rst +0 -0
  59. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/testing/index.rst +0 -0
  60. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/testing/mock_artifact.rst +0 -0
  61. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/testing/utils.rst +0 -0
  62. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/treatment/index.rst +0 -0
  63. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/treatment/magic_wand.rst +0 -0
  64. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/treatment/scale_up.rst +0 -0
  65. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/treatment/therapeutic_inertia.rst +0 -0
  66. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/api_reference/utilities.rst +0 -0
  67. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/conf.py +0 -0
  68. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/index.rst +0 -0
  69. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/tutorials/index.rst +0 -0
  70. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/docs/source/tutorials/risk_exposure.rst +0 -0
  71. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/pyproject.toml +0 -0
  72. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/setup.cfg +0 -0
  73. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/setup.py +0 -0
  74. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/__about__.py +0 -0
  75. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/__init__.py +0 -0
  76. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/disease/__init__.py +0 -0
  77. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/disease/model.py +0 -0
  78. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/disease/models.py +0 -0
  79. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/disease/special_disease.py +0 -0
  80. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/disease/state.py +0 -0
  81. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/disease/transition.py +0 -0
  82. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/metrics/__init__.py +0 -0
  83. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/metrics/disability.py +0 -0
  84. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/metrics/disease.py +0 -0
  85. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/metrics/mortality.py +0 -0
  86. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/metrics/risk.py +0 -0
  87. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/metrics/stratification.py +0 -0
  88. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/mslt/__init__.py +0 -0
  89. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/mslt/delay.py +0 -0
  90. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/mslt/disease.py +0 -0
  91. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/mslt/intervention.py +0 -0
  92. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/mslt/magic_wand_components.py +0 -0
  93. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/mslt/observer.py +0 -0
  94. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/mslt/population.py +0 -0
  95. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/plugins/__init__.py +0 -0
  96. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/plugins/parser.py +0 -0
  97. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/population/__init__.py +0 -0
  98. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/population/add_new_birth_cohorts.py +0 -0
  99. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/population/base_population.py +0 -0
  100. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/population/mortality.py +0 -0
  101. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/risks/__init__.py +0 -0
  102. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/risks/base_risk.py +0 -0
  103. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/risks/data_transformations.py +0 -0
  104. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/risks/distributions.py +0 -0
  105. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/risks/effect.py +0 -0
  106. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/risks/implementations/__init__.py +0 -0
  107. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/risks/implementations/low_birth_weight_and_short_gestation.py +0 -0
  108. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/testing/__init__.py +0 -0
  109. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/testing/mock_artifact.py +0 -0
  110. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/testing/utils.py +0 -0
  111. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/treatment/__init__.py +0 -0
  112. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/treatment/magic_wand.py +0 -0
  113. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/treatment/scale_up.py +0 -0
  114. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/treatment/therapeutic_inertia.py +0 -0
  115. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/utilities.py +0 -0
  116. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health.egg-info/SOURCES.txt +0 -0
  117. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health.egg-info/dependency_links.txt +0 -0
  118. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health.egg-info/not-zip-safe +0 -0
  119. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health.egg-info/requires.txt +0 -0
  120. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health.egg-info/top_level.txt +0 -0
  121. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/__init__.py +0 -0
  122. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/conftest.py +0 -0
  123. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/disease/__init__.py +0 -0
  124. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/disease/test_disease.py +0 -0
  125. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/disease/test_special_disease.py +0 -0
  126. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/metrics/__init__.py +0 -0
  127. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/metrics/test_categorical_risk_observer.py +0 -0
  128. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/metrics/test_disability.py +0 -0
  129. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/metrics/test_disability_observer.py +0 -0
  130. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/metrics/test_disease_observer.py +0 -0
  131. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/metrics/test_mortality_observer.py +0 -0
  132. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/metrics/test_stratification.py +0 -0
  133. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/plugins/__init__.py +0 -0
  134. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/plugins/test_parser.py +0 -0
  135. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/population/__init__.py +0 -0
  136. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/population/conftest.py +0 -0
  137. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/population/test_add_new_birth_cohort.py +0 -0
  138. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/population/test_base_population.py +0 -0
  139. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/population/test_data_transformations.py +0 -0
  140. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/risks/__init__.py +0 -0
  141. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/risks/conftest.py +0 -0
  142. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/risks/test_base_risk.py +0 -0
  143. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/risks/test_data_transformations.py +0 -0
  144. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/risks/test_distributions.py +0 -0
  145. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/risks/test_effect.py +0 -0
  146. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/test_utilities.py +0 -0
  147. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tests/treatment/__init__.py +0 -0
  148. {vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/tox.ini +0 -0
{vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/CHANGELOG.rst RENAMED
@@ -1,3 +1,7 @@
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+ **2.2.2 - 2/28/24**
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+
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+ - Fix bug in rescale_binned_proportions to update midpoitn for new age bins
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  **2.2.1 - 2/26/24**
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  - Update LinearScaleUp configuration defaults
{vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/PKG-INFO RENAMED
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  Metadata-Version: 2.1
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  Name: vivarium_public_health
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- Version: 2.2.1
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+ Version: 2.2.2
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  Summary: Components for modelling diseases, risks, and interventions with ``vivarium``
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  Home-page: https://github.com/ihmeuw/vivarium_public_health
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  Author: The vivarium developers
vivarium_public_health-2.2.2/src/vivarium_public_health/_version.py ADDED
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+ __version__ = "2.2.2"
{vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health/population/data_transformations.py RENAMED
@@ -138,7 +138,21 @@ def rescale_binned_proportions(
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  pop_data.loc[padding_bin.index, columns_to_scale] += remainder
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  pop_data.loc[min_bin.index, "age_start"] = age_start
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+ pop_data.loc[min_bin.index, "age"] = float(
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+ (
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+ pop_data.loc[min_bin.index, "age_start"].iloc[0]
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+ + pop_data.loc[min_bin.index, "age_end"].iloc[0]
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+ )
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+ / 2
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+ )
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  pop_data.loc[padding_bin.index, "age_end"] = age_start
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+ pop_data.loc[padding_bin.index, "age"] = float(
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+ (
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+ pop_data.loc[padding_bin.index, "age_start"].iloc[0]
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+ + pop_data.loc[padding_bin.index, "age_end"].iloc[0]
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+ )
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+ / 2
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+ )
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  max_bin = sub_pop[(sub_pop["age_end"] > age_end) & (age_end >= sub_pop["age_start"])]
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  padding_bin = sub_pop[sub_pop["age_start"] == float(max_bin["age_end"].iloc[0])]
{vivarium_public_health-2.2.1 → vivarium_public_health-2.2.2}/src/vivarium_public_health.egg-info/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.1
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  Name: vivarium_public_health
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- Version: 2.2.1
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+ Version: 2.2.2
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  Summary: Components for modelling diseases, risks, and interventions with ``vivarium``
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  Home-page: https://github.com/ihmeuw/vivarium_public_health
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  Author: The vivarium developers
vivarium_public_health-2.2.1/src/vivarium_public_health/_version.py DELETED
@@ -1 +0,0 @@
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- __version__ = "2.2.1"