idmtools-test 0.0.0.dev0__py3-none-any.whl → 0.0.3__py3-none-any.whl

idmtools_test/inputs/malaria_brazil_central_west_spatial/config.json

@@ -0,0 +1,667 @@
+{
+  "parameters": {
+    "Age_Dependent_Biting_Risk_Type": "SURFACE_AREA_DEPENDENT",
+    "Age_Initialization_Distribution_Type": "DISTRIBUTION_OFF",
+    "Air_Temperature_Filename": "Brazil_Central_West_Brazil_Central_West_2.5arcmin_air_temperature_daily.bin",
+    "Air_Temperature_Offset": 0,
+    "Anemia_Mortality_Inverse_Width": 1,
+    "Anemia_Mortality_Threshold": 0.654726662830038,
+    "Anemia_Severe_Inverse_Width": 10,
+    "Anemia_Severe_Threshold": 4.50775824973078,
+    "Antibody_CSP_Decay_Days": 90,
+    "Antibody_CSP_Killing_Inverse_Width": 1.5,
+    "Antibody_CSP_Killing_Threshold": 20,
+    "Antibody_Capacity_Growth_Rate": 0.09,
+    "Antibody_IRBC_Kill_Rate": 1.596,
+    "Antibody_Memory_Level": 0.34,
+    "Antibody_Stimulation_C50": 30,
+    "Antigen_Switch_Rate": 7.645570124964182e-10,
+    "Base_Air_Temperature": 27,
+    "Base_Gametocyte_Fraction_Male": 0.2,
+    "Base_Gametocyte_Mosquito_Survival_Rate": 0.002011099,
+    "Base_Gametocyte_Production_Rate": 0.06150582,
+    "Base_Land_Temperature": 27,
+    "Base_Mortality": 0.001,
+    "Base_Rainfall": 10,
+    "Base_Relative_Humidity": 0.75,
+    "Base_Sporozoite_Survival_Fraction": 0.25,
+    "Birth_Rate_Dependence": "FIXED_BIRTH_RATE",
+    "Birth_Rate_Time_Dependence": "NONE",
+    "Climate_Model": "CLIMATE_BY_DATA",
+    "Climate_Update_Resolution": "CLIMATE_UPDATE_DAY",
+    "Clinical_Fever_Threshold_High": 1.5,
+    "Clinical_Fever_Threshold_Low": 0.5,
+    "Config_Name": "",
+    "Custom_Coordinator_Events": [
+
+    ],
+    "Custom_Individual_Events": [
+
+    ],
+    "Custom_Node_Events": [
+
+    ],
+    "Custom_Reports_Filename": "",
+    "Cytokine_Gametocyte_Inactivation": 0.01667,
+    "Demographics_Filenames": [
+      "Brazil_Central_West_Brazil_Central_West_2.5arcmin_demographics.json"
+    ],
+    "Egg_Hatch_Delay_Distribution": "NO_DELAY",
+    "Egg_Hatch_Density_Dependence": "NO_DENSITY_DEPENDENCE",
+    "Egg_Saturation_At_Oviposition": "SATURATION_AT_OVIPOSITION",
+    "Enable_Aging": 1,
+    "Enable_Birth": 1,
+    "Enable_Climate_Stochasticity": 0,
+    "Enable_Default_Reporting": 1,
+    "Enable_Demographics_Birth": 0,
+    "Enable_Demographics_Builtin": 0,
+    "Enable_Demographics_Reporting": 1,
+    "Enable_Demographics_Risk": 0,
+    "Enable_Disease_Mortality": 1,
+    "Enable_Drought_Egg_Hatch_Delay": 0,
+    "Enable_Egg_Mortality": 0,
+    "Enable_Infectivity_Reservoir": 0,
+    "Enable_Initial_Prevalence": 0,
+    "Enable_Interventions": 0,
+    "Enable_Maternal_Antibodies_Transmission": 1,
+    "Enable_Maternal_Infection_Transmission": 0,
+    "Enable_Maternal_Protection": 0,
+    "Enable_Natural_Mortality": 0,
+    "Enable_Property_Output": 0,
+    "Enable_Skipping": 0,
+    "Enable_Spatial_Output": 1,
+    "Enable_Superinfection": 1,
+    "Enable_Susceptibility_Scaling": 0,
+    "Enable_Temperature_Dependent_Egg_Hatching": 0,
+    "Enable_Termination_On_Zero_Total_Infectivity": 0,
+    "Enable_Vector_Aging": 0,
+    "Enable_Vector_Migration": 1,
+    "Enable_Vector_Migration_Local": 0,
+    "Enable_Vector_Migration_Regional": 0,
+    "Enable_Vector_Mortality": 1,
+    "Enable_Vector_Species_Report": 1,
+    "Enable_Vital_Dynamics": 1,
+    "Erythropoiesis_Anemia_Effect": 3.5,
+    "Falciparum_MSP_Variants": 32,
+    "Falciparum_Nonspecific_Types": 76,
+    "Falciparum_PfEMP1_Variants": 1070,
+    "Fever_IRBC_Kill_Rate": 1.4,
+    "Fever_Mortality_Inverse_Width": 1895.51971624351,
+    "Fever_Mortality_Threshold": 3.4005008555391,
+    "Fever_Severe_Inverse_Width": 27.5653580403806,
+    "Fever_Severe_Threshold": 3.98354299722192,
+    "Gametocyte_Stage_Survival_Rate": 0.588569307,
+    "Human_Feeding_Mortality": 0.1,
+    "Incubation_Period_Constant": 7,
+    "Incubation_Period_Distribution": "CONSTANT_DISTRIBUTION",
+    "Individual_Sampling_Type": "TRACK_ALL",
+    "Infection_Updates_Per_Timestep": 8,
+    "Infectious_Period_Constant": 10,
+    "Infectivity_Scale_Type": "CONSTANT_INFECTIVITY",
+    "Innate_Immune_Variation_Type": "NONE",
+    "Insecticides": [
+
+    ],
+    "Inset_Chart_Has_Interventions": [
+
+    ],
+    "Inset_Chart_Reporting_Include_30Day_Avg_Infection_Duration": 0,
+    "Land_Temperature_Filename": "Brazil_Central_West_Brazil_Central_West_2.5arcmin_air_temperature_daily.bin",
+    "Land_Temperature_Offset": 0,
+    "Larval_Density_Dependence": "UNIFORM_WHEN_OVERPOPULATION",
+    "Load_Balance_Filename": "",
+    "MSP1_Merozoite_Kill_Fraction": 0.511735322,
+    "Malaria_Drug_Params": [
+      {
+        "Bodyweight_Exponent": 1.0,
+        "Drug_Cmax": 114.0,
+        "Drug_Decay_T1": 0.12,
+        "Drug_Decay_T2": 0.12,
+        "Drug_Dose_Interval": 0.5,
+        "Drug_Fulltreatment_Doses": 6.0,
+        "Drug_Gametocyte02_Killrate": 2.5,
+        "Drug_Gametocyte34_Killrate": 1.5,
+        "Drug_GametocyteM_Killrate": 0.7,
+        "Drug_Hepatocyte_Killrate": 0,
+        "Drug_PKPD_C50": 0.6,
+        "Drug_Vd": 1.0,
+        "Fractional_Dose_By_Upper_Age": [
+          {
+            "Fraction_Of_Adult_Dose": 0.25,
+            "Upper_Age_In_Years": 3.0
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.5,
+            "Upper_Age_In_Years": 6.0
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.75,
+            "Upper_Age_In_Years": 10.0
+          }
+        ],
+        "Max_Drug_IRBC_Kill": 8.9,
+        "Name": "Artemether",
+        "PKPD_Model": "CONCENTRATION_VERSUS_TIME",
+        "Resistances": [
+
+        ]
+      },
+      {
+        "Bodyweight_Exponent": 0.35,
+        "Drug_Cmax": 1017.0,
+        "Drug_Decay_T1": 1.3,
+        "Drug_Decay_T2": 2.0,
+        "Drug_Dose_Interval": 0.5,
+        "Drug_Fulltreatment_Doses": 6.0,
+        "Drug_Gametocyte02_Killrate": 2.4,
+        "Drug_Gametocyte34_Killrate": 0,
+        "Drug_GametocyteM_Killrate": 0,
+        "Drug_Hepatocyte_Killrate": 0,
+        "Drug_PKPD_C50": 280.0,
+        "Drug_Vd": 1.2,
+        "Fractional_Dose_By_Upper_Age": [
+          {
+            "Fraction_Of_Adult_Dose": 0.25,
+            "Upper_Age_In_Years": 3.0
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.5,
+            "Upper_Age_In_Years": 6.0
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.75,
+            "Upper_Age_In_Years": 10.0
+          }
+        ],
+        "Max_Drug_IRBC_Kill": 4.8,
+        "Name": "Lumefantrine",
+        "PKPD_Model": "CONCENTRATION_VERSUS_TIME",
+        "Resistances": [
+
+        ]
+      },
+      {
+        "Bodyweight_Exponent": 1.0,
+        "Drug_Cmax": 200.0,
+        "Drug_Decay_T1": 0.12,
+        "Drug_Decay_T2": 0.12,
+        "Drug_Dose_Interval": 1,
+        "Drug_Fulltreatment_Doses": 3,
+        "Drug_Gametocyte02_Killrate": 2.5,
+        "Drug_Gametocyte34_Killrate": 1.5,
+        "Drug_GametocyteM_Killrate": 0.7,
+        "Drug_Hepatocyte_Killrate": 0,
+        "Drug_PKPD_C50": 0.6,
+        "Drug_Vd": 1.0,
+        "Fractional_Dose_By_Upper_Age": [
+          {
+            "Fraction_Of_Adult_Dose": 0.375,
+            "Upper_Age_In_Years": 0.83
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.5,
+            "Upper_Age_In_Years": 2.83
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.625,
+            "Upper_Age_In_Years": 5.25
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.75,
+            "Upper_Age_In_Years": 7.33
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.875,
+            "Upper_Age_In_Years": 9.42
+          }
+        ],
+        "Max_Drug_IRBC_Kill": 9.2,
+        "Name": "DHA",
+        "PKPD_Model": "CONCENTRATION_VERSUS_TIME",
+        "Resistances": [
+
+        ]
+      },
+      {
+        "Bodyweight_Exponent": 0,
+        "Drug_Cmax": 30.0,
+        "Drug_Decay_T1": 0.17,
+        "Drug_Decay_T2": 41.0,
+        "Drug_Dose_Interval": 1,
+        "Drug_Fulltreatment_Doses": 3,
+        "Drug_Gametocyte02_Killrate": 2.3,
+        "Drug_Gametocyte34_Killrate": 0,
+        "Drug_GametocyteM_Killrate": 0,
+        "Drug_Hepatocyte_Killrate": 0,
+        "Drug_PKPD_C50": 5.0,
+        "Drug_Vd": 49.0,
+        "Fractional_Dose_By_Upper_Age": [
+          {
+            "Fraction_Of_Adult_Dose": 0.375,
+            "Upper_Age_In_Years": 0.83
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.5,
+            "Upper_Age_In_Years": 2.83
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.625,
+            "Upper_Age_In_Years": 5.25
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.75,
+            "Upper_Age_In_Years": 7.33
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.875,
+            "Upper_Age_In_Years": 9.42
+          }
+        ],
+        "Max_Drug_IRBC_Kill": 4.6,
+        "Name": "Piperaquine",
+        "PKPD_Model": "CONCENTRATION_VERSUS_TIME",
+        "Resistances": [
+
+        ]
+      },
+      {
+        "Bodyweight_Exponent": 1.0,
+        "Drug_Cmax": 75.0,
+        "Drug_Decay_T1": 0.36,
+        "Drug_Decay_T2": 0.36,
+        "Drug_Dose_Interval": 1,
+        "Drug_Fulltreatment_Doses": 1.0,
+        "Drug_Gametocyte02_Killrate": 2.0,
+        "Drug_Gametocyte34_Killrate": 5.0,
+        "Drug_GametocyteM_Killrate": 50.0,
+        "Drug_Hepatocyte_Killrate": 0.1,
+        "Drug_PKPD_C50": 15.0,
+        "Drug_Vd": 1.0,
+        "Fractional_Dose_By_Upper_Age": [
+          {
+            "Fraction_Of_Adult_Dose": 0.17,
+            "Upper_Age_In_Years": 5.0
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.33,
+            "Upper_Age_In_Years": 9.0
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.67,
+            "Upper_Age_In_Years": 14.0
+          }
+        ],
+        "Max_Drug_IRBC_Kill": 0.0,
+        "Name": "Primaquine",
+        "PKPD_Model": "CONCENTRATION_VERSUS_TIME",
+        "Resistances": [
+
+        ]
+      },
+      {
+        "Bodyweight_Exponent": 1.0,
+        "Drug_Cmax": 150.0,
+        "Drug_Decay_T1": 8.9,
+        "Drug_Decay_T2": 244.0,
+        "Drug_Dose_Interval": 1,
+        "Drug_Fulltreatment_Doses": 3,
+        "Drug_Gametocyte02_Killrate": 0,
+        "Drug_Gametocyte34_Killrate": 0,
+        "Drug_GametocyteM_Killrate": 0,
+        "Drug_Hepatocyte_Killrate": 0,
+        "Drug_PKPD_C50": 150.0,
+        "Drug_Vd": 3.9,
+        "Fractional_Dose_By_Upper_Age": [
+          {
+            "Fraction_Of_Adult_Dose": 0.17,
+            "Upper_Age_In_Years": 5.0
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.33,
+            "Upper_Age_In_Years": 9.0
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.67,
+            "Upper_Age_In_Years": 14.0
+          }
+        ],
+        "Max_Drug_IRBC_Kill": 4.8,
+        "Name": "Chloroquine",
+        "PKPD_Model": "CONCENTRATION_VERSUS_TIME",
+        "Resistances": [
+
+        ]
+      },
+      {
+        "Bodyweight_Exponent": 1.0,
+        "Drug_Cmax": 200.0,
+        "Drug_Decay_T1": 0.12,
+        "Drug_Decay_T2": 0.12,
+        "Drug_Dose_Interval": 1,
+        "Drug_Fulltreatment_Doses": 3,
+        "Drug_Gametocyte02_Killrate": 2.5,
+        "Drug_Gametocyte34_Killrate": 1.5,
+        "Drug_GametocyteM_Killrate": 0.7,
+        "Drug_Hepatocyte_Killrate": 0,
+        "Drug_PKPD_C50": 0.03,
+        "Drug_Vd": 1.0,
+        "Fractional_Dose_By_Upper_Age": [
+          {
+            "Fraction_Of_Adult_Dose": 0.167,
+            "Upper_Age_In_Years": 2.0
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.33,
+            "Upper_Age_In_Years": 5.0
+          }
+        ],
+        "Max_Drug_IRBC_Kill": 4.2,
+        "Name": "Artesunate",
+        "PKPD_Model": "CONCENTRATION_VERSUS_TIME",
+        "Resistances": [
+
+        ]
+      },
+      {
+        "Bodyweight_Exponent": 1.0,
+        "Drug_Cmax": 105.8,
+        "Drug_Decay_T1": 8.55,
+        "Drug_Decay_T2": 8.55,
+        "Drug_Dose_Interval": 1,
+        "Drug_Fulltreatment_Doses": 1.0,
+        "Drug_Gametocyte02_Killrate": 0,
+        "Drug_Gametocyte34_Killrate": 0,
+        "Drug_GametocyteM_Killrate": 0,
+        "Drug_Hepatocyte_Killrate": 0,
+        "Drug_PKPD_C50": 0.2,
+        "Drug_Vd": 1.0,
+        "Fractional_Dose_By_Upper_Age": [
+          {
+            "Fraction_Of_Adult_Dose": 0.167,
+            "Upper_Age_In_Years": 2.0
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.33,
+            "Upper_Age_In_Years": 5.0
+          }
+        ],
+        "Max_Drug_IRBC_Kill": 0.506,
+        "Name": "Sulfadoxine",
+        "PKPD_Model": "CONCENTRATION_VERSUS_TIME",
+        "Resistances": [
+
+        ]
+      },
+      {
+        "Bodyweight_Exponent": 1.0,
+        "Drug_Cmax": 354.1,
+        "Drug_Decay_T1": 5.411,
+        "Drug_Decay_T2": 5.411,
+        "Drug_Dose_Interval": 1,
+        "Drug_Fulltreatment_Doses": 1.0,
+        "Drug_Gametocyte02_Killrate": 0,
+        "Drug_Gametocyte34_Killrate": 0,
+        "Drug_GametocyteM_Killrate": 0,
+        "Drug_Hepatocyte_Killrate": 0,
+        "Drug_PKPD_C50": 2.0,
+        "Drug_Vd": 1.0,
+        "Fractional_Dose_By_Upper_Age": [
+          {
+            "Fraction_Of_Adult_Dose": 0.167,
+            "Upper_Age_In_Years": 2.0
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.33,
+            "Upper_Age_In_Years": 5.0
+          }
+        ],
+        "Max_Drug_IRBC_Kill": 0.6,
+        "Name": "Pyrimethamine",
+        "PKPD_Model": "CONCENTRATION_VERSUS_TIME",
+        "Resistances": [
+
+        ]
+      },
+      {
+        "Bodyweight_Exponent": 1.0,
+        "Drug_Cmax": 1185.0,
+        "Drug_Decay_T1": 0.12,
+        "Drug_Decay_T2": 6.25,
+        "Drug_Dose_Interval": 1,
+        "Drug_Fulltreatment_Doses": 3,
+        "Drug_Gametocyte02_Killrate": 0,
+        "Drug_Gametocyte34_Killrate": 0,
+        "Drug_GametocyteM_Killrate": 0,
+        "Drug_Hepatocyte_Killrate": 0,
+        "Drug_PKPD_C50": 35.5,
+        "Drug_Vd": 2.51,
+        "Fractional_Dose_By_Upper_Age": [
+          {
+            "Fraction_Of_Adult_Dose": 0.22,
+            "Upper_Age_In_Years": 1.0
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.44,
+            "Upper_Age_In_Years": 5.0
+          }
+        ],
+        "Max_Drug_IRBC_Kill": 0.67089,
+        "Name": "Amodiaquine",
+        "PKPD_Model": "CONCENTRATION_VERSUS_TIME",
+        "Resistances": [
+
+        ]
+      },
+      {
+        "Bodyweight_Exponent": 1.0,
+        "Drug_Cmax": 537.0,
+        "Drug_Decay_T1": 0.12,
+        "Drug_Decay_T2": 6.25,
+        "Drug_Dose_Interval": 1,
+        "Drug_Fulltreatment_Doses": 3,
+        "Drug_Gametocyte02_Killrate": 0,
+        "Drug_Gametocyte34_Killrate": 0,
+        "Drug_GametocyteM_Killrate": 0,
+        "Drug_Hepatocyte_Killrate": 0,
+        "Drug_PKPD_C50": 80.0,
+        "Drug_Vd": 2.51,
+        "Fractional_Dose_By_Upper_Age": [
+          {
+            "Fraction_Of_Adult_Dose": 0.22,
+            "Upper_Age_In_Years": 1.0
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.44,
+            "Upper_Age_In_Years": 5.0
+          }
+        ],
+        "Max_Drug_IRBC_Kill": 0.7089,
+        "Name": "Amodiaquine_for_AS_combination",
+        "PKPD_Model": "CONCENTRATION_VERSUS_TIME",
+        "Resistances": [
+
+        ]
+      },
+      {
+        "Bodyweight_Exponent": 1.0,
+        "Drug_Cmax": 100.0,
+        "Drug_Decay_T1": 10.0,
+        "Drug_Decay_T2": 10.0,
+        "Drug_Dose_Interval": 1,
+        "Drug_Fulltreatment_Doses": 3,
+        "Drug_Gametocyte02_Killrate": 0,
+        "Drug_Gametocyte34_Killrate": 0,
+        "Drug_GametocyteM_Killrate": 0,
+        "Drug_Hepatocyte_Killrate": 0,
+        "Drug_PKPD_C50": 10.0,
+        "Drug_Vd": 1.0,
+        "Fractional_Dose_By_Upper_Age": [
+          {
+            "Fraction_Of_Adult_Dose": 0.25,
+            "Upper_Age_In_Years": 3.0
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.5,
+            "Upper_Age_In_Years": 6.0
+          },
+          {
+            "Fraction_Of_Adult_Dose": 0.75,
+            "Upper_Age_In_Years": 10.0
+          }
+        ],
+        "Max_Drug_IRBC_Kill": 4.0,
+        "Name": "Abstract",
+        "PKPD_Model": "CONCENTRATION_VERSUS_TIME",
+        "Resistances": [
+
+        ]
+      },
+      {
+        "Bodyweight_Exponent": 0,
+        "Drug_Cmax": 10.0,
+        "Drug_Decay_T1": 1,
+        "Drug_Decay_T2": 1,
+        "Drug_Dose_Interval": 1,
+        "Drug_Fulltreatment_Doses": 1.0,
+        "Drug_Gametocyte02_Killrate": 0,
+        "Drug_Gametocyte34_Killrate": 0,
+        "Drug_GametocyteM_Killrate": 0,
+        "Drug_Hepatocyte_Killrate": 0,
+        "Drug_PKPD_C50": 5.0,
+        "Drug_Vd": 10,
+        "Fractional_Dose_By_Upper_Age": [
+
+        ],
+        "Max_Drug_IRBC_Kill": 0.0,
+        "Name": "Vehicle",
+        "PKPD_Model": "CONCENTRATION_VERSUS_TIME",
+        "Resistances": [
+
+        ]
+      }
+    ],
+    "Malaria_Model": "MALARIA_MECHANISTIC_MODEL",
+    "Malaria_Strain_Model": "FALCIPARUM_RANDOM_STRAIN",
+    "Maternal_Antibodies_Type": "SIMPLE_WANING",
+    "Maternal_Antibody_Decay_Rate": 0.01,
+    "Maternal_Antibody_Protection": 0.1327,
+    "Max_Individual_Infections": 3,
+    "Max_MSP1_Antibody_Growthrate": 0.045,
+    "Mean_Egg_Hatch_Delay": 0,
+    "Mean_Sporozoites_Per_Bite": 11,
+    "Memory_Usage_Halting_Threshold_Working_Set_MB": 8000,
+    "Memory_Usage_Warning_Threshold_Working_Set_MB": 7000,
+    "Merozoites_Per_Hepatocyte": 15000,
+    "Merozoites_Per_Schizont": 16,
+    "Migration_Model": "NO_MIGRATION",
+    "Min_Adapted_Response": 0.05,
+    "Min_Days_Between_Clinical_Incidents": 14,
+    "Mortality_Time_Course": "DAILY_MORTALITY",
+    "Node_Grid_Size": 0.042,
+    "Nonspecific_Antibody_Growth_Rate_Factor": 0.5,
+    "Nonspecific_Antigenicity_Factor": 0.415111634,
+    "Number_Basestrains": 1,
+    "Number_Of_Asexual_Cycles_Without_Gametocytes": 1,
+    "Parasite_Mortality_Inverse_Width": 327.51594505874,
+    "Parasite_Mortality_Threshold": 851138.0382023759,
+    "Parasite_Severe_Inverse_Width": 56.5754896048744,
+    "Parasite_Severe_Threshold": 851031.2877445256,
+    "Parasite_Switch_Type": "RATE_PER_PARASITE_7VARS",
+    "PfHRP2_Boost_Rate": 0.018,
+    "PfHRP2_Decay_Rate": 0.167,
+    "Population_Density_Infectivity_Correction": "CONSTANT_INFECTIVITY",
+    "Population_Scale_Type": "FIXED_SCALING",
+    "Pyrogenic_Threshold": 15000.0,
+    "RBC_Destruction_Multiplier": 3.29,
+    "Rainfall_Filename": "Brazil_Central_West_Brazil_Central_West_2.5arcmin_rainfall_daily.bin",
+    "Rainfall_In_mm_To_Fill_Swamp": 1000,
+    "Rainfall_Scale_Factor": 1,
+    "Random_Number_Generator_Policy": "ONE_PER_CORE",
+    "Random_Number_Generator_Type": "USE_PSEUDO_DES",
+    "Relative_Humidity_Filename": "Brazil_Central_West_Brazil_Central_West_2.5arcmin_relative_humidity_daily.bin",
+    "Relative_Humidity_Scale_Factor": 1,
+    "Report_Coordinator_Event_Recorder": 0,
+    "Report_Detection_Threshold_Blood_Smear_Gametocytes": 20,
+    "Report_Detection_Threshold_Blood_Smear_Parasites": 20,
+    "Report_Detection_Threshold_Fever": 1,
+    "Report_Detection_Threshold_PCR_Gametocytes": 0.05,
+    "Report_Detection_Threshold_PCR_Parasites": 0.05,
+    "Report_Detection_Threshold_PfHRP2": 5,
+    "Report_Detection_Threshold_True_Parasite_Density": 0,
+    "Report_Event_Recorder": 0,
+    "Report_Event_Recorder_PropertyChange_IP_Key_Of_Interest": "",
+    "Report_Gametocyte_Smear_Sensitivity": 0.1,
+    "Report_Node_Event_Recorder": 0,
+    "Report_Parasite_Smear_Sensitivity": 0.1,
+    "Report_Surveillance_Event_Recorder": 0,
+    "Run_Number": 1,
+    "Semipermanent_Habitat_Decay_Rate": 0.01,
+    "Serialized_Population_Reading_Type": "NONE",
+    "Serialized_Population_Writing_Type": "NONE",
+    "Simulation_Duration": 365,
+    "Simulation_Timestep": 1,
+    "Simulation_Type": "MALARIA_SIM",
+    "Spatial_Output_Channels": [
+      "Population",
+      "Prevalence",
+      "Daily_EIR",
+      "Adult_Vectors"
+    ],
+    "Start_Time": 1,
+    "Temporary_Habitat_Decay_Factor": 0.05,
+    "Vector_Larval_Rainfall_Mortality": "NONE",
+    "Vector_Migration_Food_Modifier": 0,
+    "Vector_Migration_Habitat_Modifier": 0,
+    "Vector_Migration_Modifier_Equation": "LINEAR",
+    "Vector_Migration_Stay_Put_Modifier": 0,
+    "Vector_Sampling_Type": "VECTOR_COMPARTMENTS_NUMBER",
+    "Vector_Species_Params": [
+      {
+        "Acquire_Modifier": 0.8,
+        "Adult_Life_Expectancy": 20,
+        "Anthropophily": 0.65,
+        "Aquatic_Arrhenius_1": 84200000000.0,
+        "Aquatic_Arrhenius_2": 8328,
+        "Aquatic_Mortality_Rate": 0.1,
+        "Days_Between_Feeds": 3,
+        "Drivers": [
+
+        ],
+        "Egg_Batch_Size": 100,
+        "Gene_To_Trait_Modifiers": [
+
+        ],
+        "Genes": [
+
+        ],
+        "Habitats": [
+          {
+            "Habitat_Type": "TEMPORARY_RAINFALL",
+            "Max_Larval_Capacity": 800000000
+          },
+          {
+            "Habitat_Type": "CONSTANT",
+            "Max_Larval_Capacity": 80000000
+          }
+        ],
+        "Immature_Duration": 2,
+        "Indoor_Feeding_Fraction": 0.5,
+        "Infected_Arrhenius_1": 117000000000.0,
+        "Infected_Arrhenius_2": 8336,
+        "Infected_Egg_Batch_Factor": 0.8,
+        "Infectious_Human_Feed_Mortality_Factor": 1.5,
+        "Male_Life_Expectancy": 10,
+        "Name": "arabiensis",
+        "Temperature_Dependent_Feeding_Cycle": "NO_TEMPERATURE_DEPENDENCE",
+        "Transmission_Rate": 0.9,
+        "Vector_Sugar_Feeding_Frequency": "VECTOR_SUGAR_FEEDING_NONE"
+      }
+    ],
+    "Wolbachia_Infection_Modification": 1,
+    "Wolbachia_Mortality_Modification": 1,
+    "x_Base_Population": 1,
+    "x_Birth": 1,
+    "x_Temporary_Larval_Habitat": 1,
+    "x_Vector_Migration_Local": 1
+  }
+}

idmtools_test/inputs/malaria_brazil_central_west_spatial/malaria_brazil_central_west_spatial-ERA5Input_demo.csv

@@ -0,0 +1,37 @@
+Latitude,Longitude
+-12.812500000000009,-47.93750000000001
+-12.562500000000009,-47.93750000000001
+-12.312500000000009,-47.93750000000001
+-12.062500000000009,-47.93750000000001
+-12.812500000000009,-47.68750000000001
+-12.562500000000009,-47.68750000000001
+-12.312500000000009,-47.68750000000001
+-12.062500000000009,-47.68750000000001
+-12.812500000000009,-47.43750000000001
+-12.562500000000009,-47.43750000000001
+-12.312500000000009,-47.43750000000001
+-12.062500000000009,-47.43750000000001
+-12.812500000000009,-47.18750000000001
+-12.562500000000009,-47.18750000000001
+-12.312500000000009,-47.18750000000001
+-12.062500000000009,-47.18750000000001
+-12.812500000000009,-46.93750000000001
+-12.562500000000009,-46.93750000000001
+-12.312500000000009,-46.93750000000001
+-12.062500000000009,-46.93750000000001
+-12.812500000000009,-46.68750000000001
+-12.562500000000009,-46.68750000000001
+-12.312500000000009,-46.68750000000001
+-12.062500000000009,-46.68750000000001
+-12.812500000000009,-46.43750000000001
+-12.562500000000009,-46.43750000000001
+-12.312500000000009,-46.43750000000001
+-12.062500000000009,-46.43750000000001
+-12.812500000000009,-46.18750000000001
+-12.562500000000009,-46.18750000000001
+-12.312500000000009,-46.18750000000001
+-12.062500000000009,-46.18750000000001
+-12.812500000000009,-45.93750000000001
+-12.562500000000009,-45.93750000000001
+-12.312500000000009,-45.93750000000001
+-12.062500000000009,-45.93750000000001