Nurse Shortages #1749

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PempheroM wants to merge 30 commits into master from pemphero/nurses_scenario

+173 −0

...s/scaling_capabilities/ResourceFile_HR_scaling_by_level_and_officer_type/custom_worse.csv

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...ling_capabilities/ResourceFile_HR_scaling_by_level_and_officer_type/improved_staffing.csv

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src/scripts/nurses_analyses/nurses_scenario_analyses.py

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+    """
+    This scenario file sets up the scenarios for simulating the effects of nursing staffing levels.
+    Run on the batch system using:
+    ```
+    tlo batch-submit src/scripts/nurses_analyses/nurses_scenario_analyses.py
+    ```
+    or locally using:
+    ```
+    tlo scenario-run src/scripts/nurses_analyses/nurses_scenario_analyses.py
+     ```
+    """
+    from pathlib import Path
+    from typing import Dict
+    from tlo import Date, logging
+    from tlo.analysis.utils import (
+        get_parameters_for_hrh_historical_scaling_and_rescaling_for_mode2,
+        get_root_path,
+        mix_scenarios,
+    )
+    from tlo.methods.fullmodel import fullmodel
+    from tlo.methods.scenario_switcher import ImprovedHealthSystemAndCareSeekingScenarioSwitcher
+    from tlo.scenario import BaseScenario
+    class StaffingScenario(BaseScenario):
+        def __init__(self):
+            super().__init__()
+            self.resources = get_root_path() / "resources"
+            self.seed = 0
+            self.start_date = Date(2010, 1, 1)
+            self.end_date = Date(2035, 1, 1)
+            self.pop_size = 200
+            self._scenarios = self._get_scenarios()
+            self.number_of_draws = len(self._scenarios)
+            self.runs_per_draw = 2
+        def log_configuration(self):
+            return {
+                'filename': 'nurses_scenario_outputs',
+                'directory': Path('./outputs'),  # <- (specified only for local running)
+                'custom_levels': {
+                    '*': logging.WARNING,
+                    'tlo.methods.demography': logging.INFO,
+                    'tlo.methods.demography.detail': logging.WARNING,
+                    'tlo.methods.healthburden': logging.INFO,
+                    'tlo.methods.healthsystem.summary': logging.INFO,
+                }
+            }
+        def modules(self):
+            return fullmodel() + [
+                ImprovedHealthSystemAndCareSeekingScenarioSwitcher()]
+        def draw_parameters(self, draw_number, rng):
+            if draw_number < self.number_of_draws:
+                return list(self._scenarios.values())[draw_number]
+        def draw_name(self, draw_number) -> str:
+            """Store scenario name.
+            (This name can be retrieved by the plotting scripts to make the graphs be labelled nicely).
+            """
+            if draw_number < self.number_of_draws:
+                return list(self._scenarios.keys())[draw_number]
+        @property
+        def _default_of_all_scenarios(self) -> Dict:
+            """Base set of parameters is the standard historical scaling and transition into Mode 2."""
+            return get_parameters_for_hrh_historical_scaling_and_rescaling_for_mode2()
+        @property
+        def _default_of_all_max_healthsystem_scenarios(self) -> Dict:
+            """Improved Health System Performance: the same as the default for scenarios, but increases health system
+            function and healthcare seeking behaviour in 2027"""
+            return mix_scenarios(
+                self._default_of_all_scenarios,  # <-- start with the same default set of parameters (to avoid repeating them)
+                {
+                    'ImprovedHealthSystemAndCareSeekingScenarioSwitcher': {
+                        'max_healthcare_seeking': [False, True],
+                        'max_healthsystem_function': [False, True],
+                        'year_of_switch': 2027,
+                    },
+                },
+            )
+        def _get_scenarios(self) -> Dict[str, Dict]:
+            """Return the Dict with values for the parameters that are changed, keyed by a name for the scenario.
+            """
+            return {
+                "Baseline Nurses / Default Healthsystem Function":
+                    mix_scenarios(
+                        self._default_of_all_scenarios,
+                        {
+                            "HealthSystem": {
+                                'HR_scaling_by_level_and_officer_type_mode': "default",
+                                "year_HR_scaling_by_level_and_officer_type": 2027,
+                            },
+                        },
+                    ),
+                "Fewer Nurses / Default Healthsystem Function":
+                    mix_scenarios(
+                        self._default_of_all_scenarios,
+                        {
+                            "HealthSystem": {
+                                'HR_scaling_by_level_and_officer_type_mode': "custom_worse",
+                                "year_HR_scaling_by_level_and_officer_type": 2027,
+                            },
+                        },
+                    ),
+                "More Nurses / Default Healthsystem Function":
+                    mix_scenarios(
+                        self._default_of_all_scenarios,
+                        {
+                            "HealthSystem": {
+                                'HR_scaling_by_level_and_officer_type_mode': "improved_staffing",
+                                "year_HR_scaling_by_level_and_officer_type": 2027,
+                            },
+                        },
+                    ),
+                "Baseline Nurses / Improved Healthsystem Function":
+                    mix_scenarios(
+                        self._default_of_all_max_healthsystem_scenarios,
+                        {
+                            "HealthSystem": {
+                                'HR_scaling_by_level_and_officer_type_mode': "default",
+                                "year_HR_scaling_by_level_and_officer_type": 2027,
+                            },
+                        },
+                    ),
+                "Fewer Nurses / Improved Healthsystem Function":
+                    mix_scenarios(
+                        self._default_of_all_max_healthsystem_scenarios,
+                        {
+                            "HealthSystem": {
+                                'HR_scaling_by_level_and_officer_type_mode': "custom_worse",
+                                "year_HR_scaling_by_level_and_officer_type": 2027,
+                            },
+                        },
+                    ),
+                "More Nurses / Improved Healthsystem Function":
+                    mix_scenarios(
+                        self._default_of_all_max_healthsystem_scenarios,
+                        {
+                            "HealthSystem": {
+                                'HR_scaling_by_level_and_officer_type_mode': "improved_staffing",
+                                "year_HR_scaling_by_level_and_officer_type": 2027,
+                            },
+                        },
+                    ),
+            }
+    if __name__ == '__main__':
+        from tlo.cli import scenario_run
+        scenario_run([__file__])

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