vivarium-public-health 3.1.1__py3-none-any.whl → 3.1.3__py3-none-any.whl

vivarium_public_health/risks/effect.py

@@ -7,9 +7,9 @@ This module contains tools for modeling the relationship between risk
 exposure models and disease models.
 
 """
-
+from collections.abc import Callable
 from importlib import import_module
-from typing import Any, Callable, Dict, List, Tuple, Union
+from typing import Any
 
 import numpy as np
 import pandas as pd
@@ -17,6 +17,7 @@ import scipy
 from layered_config_tree import ConfigurationError
 from vivarium import Component
 from vivarium.framework.engine import Builder
+from vivarium.framework.values import Pipeline
 
 from vivarium_public_health.risks import Risk
 from vivarium_public_health.risks.data_transformations import (
@@ -58,7 +59,7 @@ class RiskEffect(Component):
         return f"risk_effect.{risk.name}_on_{target}"
 
     @property
-    def configuration_defaults(self) -> Dict[str, Any]:
+    def configuration_defaults(self) -> dict[str, Any]:
         """Default values for any configurations managed by this component."""
         return {
             self.name: {
@@ -112,7 +113,8 @@ class RiskEffect(Component):
     def setup(self, builder: Builder) -> None:
         self.exposure = self.get_risk_exposure(builder)
 
-        self.target_modifier = self.get_target_modifier(builder)
+        self._relative_risk_source = self.get_relative_risk_source(builder)
+        self.relative_risk = self.get_relative_risk(builder)
 
         self.register_target_modifier(builder)
         self.register_paf_modifier(builder)
@@ -124,7 +126,7 @@ class RiskEffect(Component):
     def build_all_lookup_tables(self, builder: Builder) -> None:
         self._exposure_distribution_type = self.get_distribution_type(builder)
 
-        rr_data = self.get_relative_risk_data(builder)
+        rr_data = self.load_relative_risk(builder)
         rr_value_cols = None
         if self.is_exposure_categorical:
             rr_data, rr_value_cols = self.process_categorical_data(builder, rr_data)
@@ -146,11 +148,11 @@ class RiskEffect(Component):
             return risk_exposure_component.distribution_type
         return risk_exposure_component.get_distribution_type(builder)
 
-    def get_relative_risk_data(
+    def load_relative_risk(
         self,
         builder: Builder,
         configuration=None,
-    ) -> Union[str, float, pd.DataFrame]:
+    ) -> str | float | pd.DataFrame:
         if configuration is None:
             configuration = self.configuration
 
@@ -173,8 +175,8 @@ class RiskEffect(Component):
         return rr_data
 
     def get_filtered_data(
-        self, builder: "Builder", data_source: Union[str, float, pd.DataFrame]
-    ) -> Union[float, pd.DataFrame]:
+        self, builder: "Builder", data_source: str | float | pd.DataFrame
+    ) -> float | pd.DataFrame:
         data = super().get_data(builder, data_source)
 
         if isinstance(data, pd.DataFrame):
@@ -191,8 +193,8 @@ class RiskEffect(Component):
         return data
 
     def process_categorical_data(
-        self, builder: Builder, rr_data: Union[str, float, pd.DataFrame]
-    ) -> Tuple[Union[str, float, pd.DataFrame], List[str]]:
+        self, builder: Builder, rr_data: str | float | pd.DataFrame
+    ) -> tuple[str | float | pd.DataFrame, list[str]]:
         if not isinstance(rr_data, pd.DataFrame):
             cat1 = builder.data.load("population.demographic_dimensions")
             cat1["parameter"] = "cat1"
@@ -260,24 +262,27 @@ class RiskEffect(Component):
     def get_risk_exposure(self, builder: Builder) -> Callable[[pd.Index], pd.Series]:
         return builder.value.get_value(self.exposure_pipeline_name)
 
-    def get_target_modifier(
-        self, builder: Builder
-    ) -> Callable[[pd.Index, pd.Series], pd.Series]:
+    def adjust_target(self, index: pd.Index, target: pd.Series) -> pd.Series:
+        relative_risk = self.relative_risk(index)
+        return target * relative_risk
+
+    def get_relative_risk_source(self, builder: Builder) -> Callable[[pd.Index], pd.Series]:
+
         if not self.is_exposure_categorical:
             tmred = builder.data.load(f"{self.risk}.tmred")
             tmrel = 0.5 * (tmred["min"] + tmred["max"])
             scale = builder.data.load(f"{self.risk}.relative_risk_scalar")
 
-            def adjust_target(index: pd.Index, target: pd.Series) -> pd.Series:
+            def generate_relative_risk(index: pd.Index) -> pd.Series:
                 rr = self.lookup_tables["relative_risk"](index)
                 exposure = self.exposure(index)
                 relative_risk = np.maximum(rr.values ** ((exposure - tmrel) / scale), 1)
-                return target * relative_risk
+                return relative_risk
 
         else:
             index_columns = ["index", self.risk.name]
 
-            def adjust_target(index: pd.Index, target: pd.Series) -> pd.Series:
+            def generate_relative_risk(index: pd.Index) -> pd.Series:
                 rr = self.lookup_tables["relative_risk"](index)
                 exposure = self.exposure(index).reset_index()
                 exposure.columns = index_columns
@@ -288,16 +293,24 @@ class RiskEffect(Component):
                 relative_risk = relative_risk.set_index(index_columns)
 
                 effect = relative_risk.loc[exposure.index, "value"].droplevel(self.risk.name)
-                affected_rates = target * effect
-                return affected_rates
+                return effect
 
-        return adjust_target
+        return generate_relative_risk
+
+    def get_relative_risk(self, builder: Builder) -> Pipeline:
+        return builder.value.register_value_producer(
+            f"{self.risk.name}_on_{self.target.name}.relative_risk",
+            self._relative_risk_source,
+            component=self,
+            required_resources=[self.exposure],
+        )
 
     def register_target_modifier(self, builder: Builder) -> None:
         builder.value.register_value_modifier(
             self.target_pipeline_name,
-            modifier=self.target_modifier,
-            requires_values=[f"{self.risk.name}.exposure"],
+            modifier=self.adjust_target,
+            component=self,
+            required_resources=[self.relative_risk],
         )
 
     def register_paf_modifier(self, builder: Builder) -> None:
@@ -307,7 +320,8 @@ class RiskEffect(Component):
         builder.value.register_value_modifier(
             self.target_paf_pipeline_name,
             modifier=self.lookup_tables["population_attributable_fraction"],
-            requires_columns=required_columns,
+            component=self,
+            required_resources=required_columns,
         )
 
     ##################
@@ -347,7 +361,7 @@ class NonLogLinearRiskEffect(RiskEffect):
     ##############
 
     @property
-    def configuration_defaults(self) -> Dict[str, Any]:
+    def configuration_defaults(self) -> dict[str, Any]:
         """Default values for any configurations managed by this component."""
         return {
             self.name: {
@@ -371,7 +385,7 @@ class NonLogLinearRiskEffect(RiskEffect):
         return f"non_log_linear_risk_effect.{risk.name}_on_{target}"
 
     def build_all_lookup_tables(self, builder: Builder) -> None:
-        rr_data = self.get_relative_risk_data(builder)
+        rr_data = self.load_relative_risk(builder)
         self.validate_rr_data(rr_data)
 
         def define_rr_intervals(df: pd.DataFrame) -> pd.DataFrame:
@@ -415,11 +429,11 @@ class NonLogLinearRiskEffect(RiskEffect):
             builder, paf_data
         )
 
-    def get_relative_risk_data(
+    def load_relative_risk(
         self,
         builder: Builder,
         configuration=None,
-    ) -> Union[str, float, pd.DataFrame]:
+    ) -> str | float | pd.DataFrame:
         if configuration is None:
             configuration = self.configuration
 
@@ -472,10 +486,8 @@ class NonLogLinearRiskEffect(RiskEffect):
 
         return rr_data
 
-    def get_target_modifier(
-        self, builder: Builder
-    ) -> Callable[[pd.Index, pd.Series], pd.Series]:
-        def adjust_target(index: pd.Index, target: pd.Series) -> pd.Series:
+    def get_relative_risk_source(self, builder: Builder) -> Callable[[pd.Index], pd.Series]:
+        def generate_relative_risk(index: pd.Index) -> pd.Series:
             rr_intervals = self.lookup_tables["relative_risk"](index)
             exposure = self.population_view.get(index)[f"{self.risk.name}_exposure"]
             x1, x2 = (
@@ -486,9 +498,9 @@ class NonLogLinearRiskEffect(RiskEffect):
             m = (y2 - y1) / (x2 - x1)
             b = y1 - m * x1
             relative_risk = b + m * exposure
-            return target * relative_risk
+            return relative_risk
 
-        return adjust_target
+        return generate_relative_risk
 
     ##############
     # Validators #

vivarium_public_health/risks/implementations/low_birth_weight_and_short_gestation.py

@@ -9,7 +9,8 @@ implementation that has been used in several public health models.
 """
 
 import pickle
-from typing import Any, Callable, Dict, List, Optional, Tuple
+from collections.abc import Callable
+from typing import Any
 
 import numpy as np
 import pandas as pd
@@ -39,7 +40,7 @@ class LBWSGDistribution(PolytomousDistribution):
         super().setup(builder)
         self.category_intervals = self.get_category_intervals(builder)
 
-    def get_category_intervals(self, builder: Builder) -> Dict[str, Dict[str, pd.Interval]]:
+    def get_category_intervals(self, builder: Builder) -> dict[str, dict[str, pd.Interval]]:
         """Gets the intervals for each category.
 
         Parameters
@@ -51,7 +52,7 @@ class LBWSGDistribution(PolytomousDistribution):
         -------
             The intervals for each category.
         """
-        categories: Dict[str, str] = builder.data.load(f"{self.risk}.categories")
+        categories: dict[str, str] = builder.data.load(f"{self.risk}.categories")
         category_intervals = {
             axis: {
                 category: self._parse_description(axis, description)
@@ -96,8 +97,8 @@ class LBWSGDistribution(PolytomousDistribution):
         self,
         axis: str,
         propensity: pd.Series,
-        categorical_propensity: Optional[pd.Series] = None,
-        categorical_exposure: Optional[pd.Series] = None,
+        categorical_propensity: pd.Series | None = None,
+        categorical_exposure: pd.Series | None = None,
     ) -> pd.Series:
         """Calculate continuous exposures from propensities for a single axis.
 
@@ -199,13 +200,13 @@ class LBWSGRisk(Risk):
     ##############
 
     @property
-    def configuration_defaults(self) -> Dict[str, Any]:
+    def configuration_defaults(self) -> dict[str, Any]:
         configuration_defaults = super().configuration_defaults
         configuration_defaults[self.name]["distribution_type"] = "lbwsg"
         return configuration_defaults
 
     @property
-    def columns_created(self) -> List[str]:
+    def columns_created(self) -> list[str]:
         return [self.get_exposure_column_name(axis) for axis in self.AXES]
 
     #####################
@@ -224,15 +225,15 @@ class LBWSGRisk(Risk):
     # Setup methods #
     #################
 
-    def get_propensity_pipeline(self, builder: Builder) -> Optional[Pipeline]:
+    def get_propensity_pipeline(self, builder: Builder) -> Pipeline | None:
         # Propensity only used on initialization; not being saved to avoid a cycle
         return None
 
-    def get_exposure_pipeline(self, builder: Builder) -> Optional[Pipeline]:
+    def get_exposure_pipeline(self, builder: Builder) -> Pipeline | None:
         # Exposure only used on initialization; not being saved to avoid a cycle
         return None
 
-    def get_birth_exposure_pipelines(self, builder: Builder) -> Dict[str, Pipeline]:
+    def get_birth_exposure_pipelines(self, builder: Builder) -> dict[str, Pipeline]:
         required_columns = get_lookup_columns(
             self.exposure_distribution.lookup_tables.values()
         )
@@ -291,15 +292,15 @@ class LBWSGRiskEffect(RiskEffect):
     ##############
 
     @property
-    def columns_created(self) -> List[str]:
+    def columns_created(self) -> list[str]:
         return self.rr_column_names
 
     @property
-    def columns_required(self) -> Optional[List[str]]:
+    def columns_required(self) -> list[str] | None:
         return ["age", "sex"] + self.lbwsg_exposure_column_names
 
     @property
-    def initialization_requirements(self) -> Dict[str, List[str]]:
+    def initialization_requirements(self) -> dict[str, list[str]]:
         return {
             "requires_columns": ["sex"] + self.lbwsg_exposure_column_names,
             "requires_values": [],
@@ -307,7 +308,7 @@ class LBWSGRiskEffect(RiskEffect):
         }
 
     @property
-    def rr_column_names(self) -> List[str]:
+    def rr_column_names(self) -> list[str]:
         return [self.relative_risk_column_name(age_group) for age_group in self.age_intervals]
 
     #####################
@@ -335,7 +336,6 @@ class LBWSGRiskEffect(RiskEffect):
 
         super().setup(builder)
         self.interpolator = self.get_interpolator(builder)
-        self.relative_risk = self.get_relative_risk_pipeline(builder)
 
     #################
     # Setup methods #
@@ -356,7 +356,7 @@ class LBWSGRiskEffect(RiskEffect):
 
     def get_population_attributable_fraction_source(
         self, builder: Builder
-    ) -> Tuple[pd.DataFrame, List[str]]:
+    ) -> tuple[pd.DataFrame, list[str]]:
         paf_key = f"{self.risk}.population_attributable_fraction"
         paf_data = builder.data.load(paf_key)
         return paf_data, builder.data.value_columns()(paf_key)
@@ -376,7 +376,7 @@ class LBWSGRiskEffect(RiskEffect):
             requires_values=[self.relative_risk_pipeline_name],
         )
 
-    def get_age_intervals(self, builder: Builder) -> Dict[str, pd.Interval]:
+    def get_age_intervals(self, builder: Builder) -> dict[str, pd.Interval]:
         age_bins = builder.data.load("population.age_bins").set_index("age_start")
         exposure = builder.data.load(f"{self.risk}.exposure")
         exposure = exposure[exposure["age_end"] > 0]
@@ -392,10 +392,10 @@ class LBWSGRiskEffect(RiskEffect):
             for age_start in exposed_age_group_starts
         }
 
-    def get_relative_risk_pipeline(self, builder: Builder) -> Pipeline:
+    def get_relative_risk(self, builder: Builder) -> Pipeline:
         return builder.value.register_value_producer(
             self.relative_risk_pipeline_name,
-            source=self.get_relative_risk,
+            source=self.get_relative_risk_source,
             requires_columns=["age"] + self.rr_column_names,
         )
 
@@ -469,7 +469,7 @@ class LBWSGRiskEffect(RiskEffect):
     # Pipeline sources and modifiers #
     ##################################
 
-    def get_relative_risk(self, index: pd.Index) -> pd.Series:
+    def get_relative_risk_source(self, index: pd.Index) -> pd.Series:
         pop = self.population_view.get(index)
         relative_risk = pd.Series(1.0, index=index, name=self.relative_risk_pipeline_name)
 

vivarium_public_health/treatment/magic_wand.py

@@ -8,7 +8,7 @@ level by providing direct shifts to epidemiological measures.
 
 """
 
-from typing import Any, Dict, List, Optional
+from typing import Any
 
 from vivarium import Component
 from vivarium.framework.engine import Builder
@@ -30,13 +30,13 @@ class AbsoluteShift(Component):
     ##############
 
     @property
-    def configuration_defaults(self) -> Dict[str, Any]:
+    def configuration_defaults(self) -> dict[str, Any]:
         return {
             f"intervention_on_{self.target.name}": self.CONFIGURATION_DEFAULTS["intervention"]
         }
 
     @property
-    def columns_required(self) -> Optional[List[str]]:
+    def columns_required(self) -> list[str] | None:
         return ["age"]
 
     #####################

vivarium_public_health/treatment/scale_up.py

@@ -7,7 +7,8 @@ This module contains tools for applying a linear scale-up to an intervention
 
 """
 
-from typing import Any, Callable, Dict, Tuple
+from collections.abc import Callable
+from typing import Any
 
 import pandas as pd
 from vivarium import Component
@@ -61,7 +62,7 @@ class LinearScaleUp(Component):
     ##############
 
     @property
-    def configuration_defaults(self) -> Dict[str, Any]:
+    def configuration_defaults(self) -> dict[str, Any]:
         return {self.configuration_key: self.CONFIGURATION_DEFAULTS["treatment"]}
 
     @property
@@ -108,11 +109,11 @@ class LinearScaleUp(Component):
         return builder.time.clock()
 
     # noinspection PyMethodMayBeStatic
-    def get_scale_up_dates(self, builder: Builder) -> Tuple[pd.Timestamp, pd.Timestamp]:
+    def get_scale_up_dates(self, builder: Builder) -> tuple[pd.Timestamp, pd.Timestamp]:
         scale_up_config = builder.configuration[self.configuration_key]["date"]
         return pd.Timestamp(scale_up_config["start"]), pd.Timestamp(scale_up_config["end"])
 
-    def get_scale_up_values(self, builder: Builder) -> Tuple[LookupTable, LookupTable]:
+    def get_scale_up_values(self, builder: Builder) -> tuple[LookupTable, LookupTable]:
         """Get the values at the start and end of the scale-up period.
 
         Parameters
@@ -137,7 +138,7 @@ class LinearScaleUp(Component):
         return get_endpoint_value("start"), get_endpoint_value("end")
 
     # noinspection PyMethodMayBeStatic
-    def get_required_pipelines(self, builder: Builder) -> Dict[str, Pipeline]:
+    def get_required_pipelines(self, builder: Builder) -> dict[str, Pipeline]:
         return {}
 
     def register_intervention_modifiers(self, builder: Builder):

vivarium_public_health/utilities.py

@@ -7,9 +7,8 @@ This module contains utility classes and functions for use across
 vivarium_public_health components.
 
 """
-
+from collections.abc import Iterable
 from pathlib import Path
-from typing import Any, Dict, Iterable, List, Optional, Union
 
 import pandas as pd
 from vivarium.framework.lookup import LookupTable, ScalarValue
@@ -77,7 +76,7 @@ DAYS_PER_YEAR = 365.25
 DAYS_PER_MONTH = DAYS_PER_YEAR / 12
 
 
-def to_time_delta(span_in_days: Union[int, float, str]):
+def to_time_delta(span_in_days: int | float | str):
     span_in_days = float(span_in_days)
     days, remainder = span_in_days // 1, span_in_days % 1
     hours, remainder = (24 * remainder) // 24, (24 * remainder) % 24
@@ -90,7 +89,7 @@ def to_years(time: pd.Timedelta) -> float:
     return time / pd.Timedelta(days=DAYS_PER_YEAR)
 
 
-def is_non_zero(data: Union[Iterable[ScalarValue], ScalarValue, pd.DataFrame]) -> bool:
+def is_non_zero(data: Iterable[ScalarValue] | ScalarValue | pd.DataFrame) -> bool:
     if isinstance(data, pd.DataFrame):
         attribute_sum = data.value.sum()
     elif isinstance(data, Iterable):
@@ -103,7 +102,7 @@ def is_non_zero(data: Union[Iterable[ScalarValue], ScalarValue, pd.DataFrame]) -
 
 def get_lookup_columns(
     lookup_tables: Iterable[LookupTable], necessary_columns: Iterable = ()
-) -> List[str]:
+) -> list[str]:
     necessary_columns = set(necessary_columns)
     for lookup_table in lookup_tables:
         necessary_columns.update(set(lookup_table.key_columns))

{vivarium_public_health-3.1.1.dist-info → vivarium_public_health-3.1.3.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: vivarium_public_health
-Version: 3.1.1
+Version: 3.1.3
 Summary: Components for modelling diseases, risks, and interventions with ``vivarium``
 Home-page: https://github.com/ihmeuw/vivarium_public_health
 Author: The vivarium developers
@@ -26,44 +26,44 @@ Classifier: Topic :: Scientific/Engineering :: Medical Science Apps.
 Classifier: Topic :: Scientific/Engineering :: Physics
 Classifier: Topic :: Software Development :: Libraries
 License-File: LICENSE.txt
-Requires-Dist: vivarium >=3.2.0
-Requires-Dist: layered-config-tree >=1.0.1
+Requires-Dist: vivarium>=3.2.0
+Requires-Dist: layered_config_tree>=1.0.1
 Requires-Dist: loguru
-Requires-Dist: numpy <2.0.0
+Requires-Dist: numpy<2.0.0
 Requires-Dist: pandas
 Requires-Dist: scipy
 Requires-Dist: tables
-Requires-Dist: risk-distributions >=2.0.11
+Requires-Dist: risk_distributions>=2.0.11
 Requires-Dist: pyarrow
-Provides-Extra: dev
-Requires-Dist: sphinx <7.0 ; extra == 'dev'
-Requires-Dist: sphinx-rtd-theme ; extra == 'dev'
-Requires-Dist: sphinx-click ; extra == 'dev'
-Requires-Dist: sphinx-autodoc-typehints ; extra == 'dev'
-Requires-Dist: IPython ; extra == 'dev'
-Requires-Dist: matplotlib ; extra == 'dev'
-Requires-Dist: vivarium-testing-utils ; extra == 'dev'
-Requires-Dist: pytest ; extra == 'dev'
-Requires-Dist: pytest-cov ; extra == 'dev'
-Requires-Dist: pytest-mock ; extra == 'dev'
-Requires-Dist: hypothesis ; extra == 'dev'
-Requires-Dist: pyyaml ; extra == 'dev'
-Requires-Dist: black ==22.3.0 ; extra == 'dev'
-Requires-Dist: isort ; extra == 'dev'
 Provides-Extra: docs
-Requires-Dist: sphinx <7.0 ; extra == 'docs'
-Requires-Dist: sphinx-rtd-theme ; extra == 'docs'
-Requires-Dist: sphinx-click ; extra == 'docs'
-Requires-Dist: sphinx-autodoc-typehints ; extra == 'docs'
-Requires-Dist: IPython ; extra == 'docs'
-Requires-Dist: matplotlib ; extra == 'docs'
+Requires-Dist: sphinx<7.0; extra == "docs"
+Requires-Dist: sphinx-rtd-theme; extra == "docs"
+Requires-Dist: sphinx-click; extra == "docs"
+Requires-Dist: sphinx-autodoc-typehints; extra == "docs"
+Requires-Dist: IPython; extra == "docs"
+Requires-Dist: matplotlib; extra == "docs"
 Provides-Extra: test
-Requires-Dist: vivarium-testing-utils ; extra == 'test'
-Requires-Dist: pytest ; extra == 'test'
-Requires-Dist: pytest-cov ; extra == 'test'
-Requires-Dist: pytest-mock ; extra == 'test'
-Requires-Dist: hypothesis ; extra == 'test'
-Requires-Dist: pyyaml ; extra == 'test'
+Requires-Dist: vivarium_testing_utils; extra == "test"
+Requires-Dist: pytest; extra == "test"
+Requires-Dist: pytest-cov; extra == "test"
+Requires-Dist: pytest-mock; extra == "test"
+Requires-Dist: hypothesis; extra == "test"
+Requires-Dist: pyyaml; extra == "test"
+Provides-Extra: dev
+Requires-Dist: sphinx<7.0; extra == "dev"
+Requires-Dist: sphinx-rtd-theme; extra == "dev"
+Requires-Dist: sphinx-click; extra == "dev"
+Requires-Dist: sphinx-autodoc-typehints; extra == "dev"
+Requires-Dist: IPython; extra == "dev"
+Requires-Dist: matplotlib; extra == "dev"
+Requires-Dist: vivarium_testing_utils; extra == "dev"
+Requires-Dist: pytest; extra == "dev"
+Requires-Dist: pytest-cov; extra == "dev"
+Requires-Dist: pytest-mock; extra == "dev"
+Requires-Dist: hypothesis; extra == "dev"
+Requires-Dist: pyyaml; extra == "dev"
+Requires-Dist: black==22.3.0; extra == "dev"
+Requires-Dist: isort; extra == "dev"
 
 Vivarium Public Health
 ======================

vivarium_public_health-3.1.3.dist-info/RECORD

@@ -0,0 +1,49 @@
+vivarium_public_health/__about__.py,sha256=RgWycPypKZS80TpSX7o41cREnG8PfguNHDHLuLyl820,487
+vivarium_public_health/__init__.py,sha256=GDeeP-7OlCBwPuv_xQoB1wNmvCaFsqfTB7qnnYApm0w,1343
+vivarium_public_health/_version.py,sha256=xoSqNkNOCK0xzFXnsO80epHc1vbiRC8Nbn4Cy-2wBX4,22
+vivarium_public_health/utilities.py,sha256=QNXQ6fhAr1HcV-GwKw7wQLz6QyuNxqNvMA-XujKjTgs,3035
+vivarium_public_health/disease/__init__.py,sha256=VUJHDLlE6ngo2qHNQUtZ8OWH5H_T7_ao-xsYKDkRmHw,443
+vivarium_public_health/disease/model.py,sha256=ZwhhQCc8jj_QeJZO2zLtp_yWzqRxvLjuzW7iDUmmBGA,8852
+vivarium_public_health/disease/models.py,sha256=01UK7yB2zGPFzmlIpvhd-XnGe6vSCMDza3QTidgY7Nc,3479
+vivarium_public_health/disease/special_disease.py,sha256=kTVuE5rQjUK62ysComG8nB2f61aCKdca9trRB1zsDCQ,14537
+vivarium_public_health/disease/state.py,sha256=NwTnxB_i05magsJuEc1_Z_0xMMKsqSPXIpibUdxPrWY,22333
+vivarium_public_health/disease/transition.py,sha256=4g_F8L3Godb4yQjHRr42n95QXo6m0ldI6c8_vu6cTfo,6429
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