Index

A

AbstractBaseReporter (class in emodpy.reporters.base) AbstractTargetingConfig (class in emodpy.utils.targeting_config) AbstractWaningConfig (class in emodpy.campaign.waning_config) AcquisitionBlocking (emodpy.utils.emod_enum.VaccineType attribute) add() (emodpy.reporters.base.Reporters method) add_climate_files() (emodpy.emod_file.ClimateFiles method) add_demographics_from_dict() (emodpy.emod_file.DemographicsFiles method) add_demographics_from_files() (emodpy.emod_file.DemographicsFiles method) add_embedded_python_scripts_from_path() (emodpy.emod_task.EMODTask method) add_event() (emodpy.campaign.emod_campaign.EMODCampaign method) add_events() (emodpy.campaign.emod_campaign.EMODCampaign method) add_intervention_scheduled() (in module emodpy.campaign.distributor)

add_intervention_triggered() (in module emodpy.campaign.distributor) add_migration_from_file() (emodpy.emod_file.MigrationFiles method) add_py_path() (emodpy.emod_task.EMODTask method) add_serialization_timesteps() (in module emodpy.generic.serialization) add_serialized_population_files_from_path() (emodpy.emod_task.EMODTask method) AdultVectorsAnalyzer (class in emodpy.analyzers.adult_vectors_analyzer) AIR (emodpy.emod_file.MigrationTypes attribute) AIR_TEMPERATURE (emodpy.emod_file.ClimateFileType attribute) Air_Temperature (emodpy.reporters.common.SpatialReportChannels attribute) ALL (emodpy.campaign.common.TargetGender attribute) asset collection assets

B

BaseDistribution (class in emodpy.utils.distributions) BaseEvent (class in emodpy.campaign.event) BaseEventCoordinator (class in emodpy.campaign.event_coordinator) BaseTargetingConfig (class in emodpy.utils.targeting_config) BaseWaningConfig (class in emodpy.campaign.waning_config) BIMODAL_DISTRIBUTION (emodpy.utils.emod_enum.DistributionType attribute) BimodalDistribution (class in emodpy.utils.distributions) Births (emodpy.reporters.common.SpatialReportChannels attribute)

Box (class in emodpy.campaign.waning_config) BoxExponential (class in emodpy.campaign.waning_config) BroadcastEvent (class in emodpy.campaign.individual_intervention) BroadcastEventToOtherNodes (class in emodpy.campaign.individual_intervention) BroadcastNodeEvent (class in emodpy.campaign.node_intervention) build_default_campaign() (emodpy.emod_task.EMODTask static method) build_default_config() (emodpy.emod_task.EMODTask static method) builder BuiltInReporter (class in emodpy.reporters.base)

C

campaign (emodpy.emod_task.EMODTask attribute) Campaign_Cost (emodpy.reporters.common.SpatialReportChannels attribute) CampaignEvent (class in emodpy.campaign.event) CampaignEventByYear (class in emodpy.campaign.event) clear() (emodpy.campaign.emod_campaign.EMODCampaign method) climate (emodpy.emod_task.EMODTask attribute) CLIMATE_BY_DATA (emodpy.emod_file.ClimateModel attribute) CLIMATE_CONSTANT (emodpy.emod_file.ClimateModel attribute) CLIMATE_KOPPEN (emodpy.emod_file.ClimateModel attribute) CLIMATE_OFF (emodpy.emod_file.ClimateModel attribute) ClimateFiles (class in emodpy.emod_file) ClimateFileType (class in emodpy.emod_file) ClimateModel (class in emodpy.emod_file) Combo (class in emodpy.campaign.waning_config)

CommonInterventionParameters (class in emodpy.campaign.common) config (emodpy.emod_task.EMODTask attribute) Config (emodpy.utils.emod_enum.EventOrConfig attribute) config_file_name (emodpy.emod_task.EMODTask attribute) ConfigReporter (class in emodpy.reporters.base) Constant (class in emodpy.campaign.waning_config) CONSTANT_DISTRIBUTION (emodpy.utils.emod_enum.DistributionType attribute) ConstantDistribution (class in emodpy.utils.distributions) ControlledVaccine (class in emodpy.campaign.individual_intervention) copy_simulation() (emodpy.emod_task.EMODTask method) create_campaign_event() (in module emodpy.campaign.event) create_campaign_from_callback() (emodpy.emod_task.EMODTask method) create_demographics_from_callback() (emodpy.emod_task.EMODTask method) CURRENT_AGE (emodpy.utils.emod_enum.SettingType attribute) cut_iterable_to() (in module emodpy.utils.collections_utils)

D

data_group_names (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer attribute) deep_del() (in module emodpy.utils.collections_utils) deep_get() (in module emodpy.utils.collections_utils) deep_set() (in module emodpy.utils.collections_utils) default_filter_fn() (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer method) default_group_fn() (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer method) default_plot_fn() (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer method) default_select_fn() (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer method) DelayedIntervention (class in emodpy.campaign.individual_intervention) demographics (emodpy.emod_task.EMODTask attribute)

DemographicsFiles (class in emodpy.emod_file) DemographicsReport (class in emodpy.reporters.common) Disease_Deaths (emodpy.reporters.common.SpatialReportChannels attribute) DISTANCE_AND_MIGRATION (emodpy.utils.emod_enum.NodeSelectionType attribute) DISTANCE_ONLY (emodpy.utils.emod_enum.NodeSelectionType attribute) DistributionType (class in emodpy.utils.emod_enum) do_nodes() (in module emodpy.campaign.utils) DUAL_CONSTANT_DISTRIBUTION (emodpy.utils.emod_enum.DistributionType attribute) DUAL_EXPONENTIAL_DISTRIBUTION (emodpy.utils.emod_enum.DistributionType attribute) DualConstantDistribution (class in emodpy.utils.distributions) DualExponentialDistribution (class in emodpy.utils.distributions)

E

EMODCampaign (class in emodpy.campaign.emod_campaign) emodpy module emodpy.analyzers module emodpy.analyzers.adult_vectors_analyzer module emodpy.analyzers.population_analyzer module emodpy.analyzers.timeseries_analyzer module emodpy.campaign module emodpy.campaign.base_intervention module emodpy.campaign.common module emodpy.campaign.distributor module emodpy.campaign.emod_campaign module emodpy.campaign.event module emodpy.campaign.event_coordinator module emodpy.campaign.individual_intervention module emodpy.campaign.node_intervention module emodpy.campaign.utils module emodpy.campaign.waning_config module emodpy.emod_file module

emodpy.emod_task module emodpy.generic module emodpy.generic.serialization module emodpy.reporters module emodpy.reporters.base module emodpy.reporters.common module emodpy.utils module emodpy.utils.collections_utils module emodpy.utils.distributions module emodpy.utils.emod_constants module emodpy.utils.emod_enum module emodpy.utils.targeting_config module EMODTask (class in emodpy.emod_task) EMODTaskSpecification (class in emodpy.emod_task) enable_migration() (emodpy.emod_file.MigrationFiles method) enable_serialization() (in module emodpy.generic.serialization) eradication_path (emodpy.emod_task.EMODTask attribute) Event (emodpy.utils.emod_enum.EventOrConfig attribute) EventOrConfig (class in emodpy.utils.emod_enum) experiment Exponential (class in emodpy.campaign.waning_config) EXPONENTIAL_DISTRIBUTION (emodpy.utils.emod_enum.DistributionType attribute) ExponentialDistribution (class in emodpy.utils.distributions)

F

FAMILY (emodpy.emod_file.MigrationTypes attribute) FEMALE (emodpy.campaign.common.TargetGender attribute) filter() (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer method)

FIXED_RATE_MIGRATION (emodpy.emod_file.MigrationModel attribute) from_defaults() (emodpy.emod_task.EMODTask class method) from_files() (emodpy.emod_task.EMODTask class method)

G

gather_assets() (emodpy.emod_file.ClimateFiles method) (emodpy.emod_file.InputFilesList method) (emodpy.emod_file.MigrationFiles method) gather_common_assets() (emodpy.emod_task.EMODTask method) gather_transient_assets() (emodpy.emod_task.EMODTask method) GAUSSIAN_DISTRIBUTION (emodpy.utils.emod_enum.DistributionType attribute) GaussianDistribution (class in emodpy.utils.distributions) Generic (emodpy.utils.emod_enum.VaccineType attribute) get() (emodpy.emod_task.EMODTaskSpecification method) get_channel_data() (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer method) get_demographic_distribution_parameters() (emodpy.utils.distributions.BaseDistribution method) (emodpy.utils.distributions.BimodalDistribution method) (emodpy.utils.distributions.ConstantDistribution method) (emodpy.utils.distributions.DualConstantDistribution method) (emodpy.utils.distributions.DualExponentialDistribution method) (emodpy.utils.distributions.ExponentialDistribution method) (emodpy.utils.distributions.GaussianDistribution method) (emodpy.utils.distributions.LogNormalDistribution method) (emodpy.utils.distributions.PoissonDistribution method) (emodpy.utils.distributions.UniformDistribution method) (emodpy.utils.distributions.WeibullDistribution method)

get_description() (emodpy.emod_task.EMODTaskSpecification method) get_events_at() (emodpy.campaign.emod_campaign.EMODCampaign method) get_events_with_name() (emodpy.campaign.emod_campaign.EMODCampaign method) get_parameter() (emodpy.emod_task.EMODTask method) get_schema_path() (emodpy.reporters.base.Reporters method) get_trigger_conditions() (in module emodpy.campaign.utils) get_type() (emodpy.emod_task.EMODTaskSpecification method) get_version() (emodpy.emod_task.EMODTaskSpecification method)

H

handle_implicit_configs() (emodpy.emod_task.EMODTask method) HasIntervention (class in emodpy.utils.targeting_config)

HasIP (class in emodpy.utils.targeting_config) high-performance computing (HPC) Human_Infectious_Reservoir (emodpy.reporters.common.SpatialReportChannels attribute)

I

implicit_configs (emodpy.emod_task.EMODTask attribute) ImportPressure (class in emodpy.campaign.node_intervention) IndividualImmunityChanger (class in emodpy.campaign.individual_intervention) IndividualIntervention (class in emodpy.campaign.base_intervention) (emodpy.campaign.base_intervention.InterventionType attribute) IndividualNonDiseaseDeathRateModifier (class in emodpy.campaign.individual_intervention) Infected (emodpy.reporters.common.SpatialReportChannels attribute) initialize() (emodpy.analyzers.adult_vectors_analyzer.AdultVectorsAnalyzer method) (emodpy.analyzers.population_analyzer.PopulationAnalyzer method) (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer method)

InputFilesList (class in emodpy.emod_file) InsetChart (class in emodpy.reporters.common) InterventionDistributorEventCoordinator (class in emodpy.campaign.event_coordinator) InterventionType (class in emodpy.campaign.base_intervention) is_linux (emodpy.emod_task.EMODTask attribute) is_valid_key_value_pair() (in module emodpy.utils) is_year_supported() (emodpy.campaign.event.CampaignEventByYear method) IsPregnant (class in emodpy.utils.targeting_config) IVCalendar (class in emodpy.campaign.individual_intervention) IVCalendar.AgeAndProbability (class in emodpy.campaign.individual_intervention)

J

json (emodpy.campaign.emod_campaign.EMODCampaign property) (emodpy.reporters.base.Reporters property)

L

LAND_TEMPERATURE (emodpy.emod_file.ClimateFileType attribute) load_from_dict() (emodpy.campaign.emod_campaign.EMODCampaign static method) load_from_file() (emodpy.campaign.emod_campaign.EMODCampaign static method)

load_serialized_population() (in module emodpy.generic.serialization) LOCAL (emodpy.emod_file.MigrationTypes attribute) LOG_NORMAL_DISTRIBUTION (emodpy.utils.emod_enum.DistributionType attribute) LogNormalDistribution (class in emodpy.utils.distributions)

M

MALE (emodpy.campaign.common.TargetGender attribute) map() (emodpy.analyzers.adult_vectors_analyzer.AdultVectorsAnalyzer method) (emodpy.analyzers.population_analyzer.PopulationAnalyzer method) (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer method) MapLinear (class in emodpy.campaign.waning_config) MapLinearAge (class in emodpy.campaign.waning_config) MapLinearSeasonal (class in emodpy.campaign.waning_config) MapPiecewise (class in emodpy.campaign.waning_config) merge_with() (emodpy.emod_file.MigrationFiles method) MigrateFamily (class in emodpy.campaign.node_intervention) MigrateIndividuals (class in emodpy.campaign.individual_intervention) MIGRATION_NODES_ONLY (emodpy.utils.emod_enum.NodeSelectionType attribute) MigrationFiles (class in emodpy.emod_file) MigrationModel (class in emodpy.emod_file) MigrationPattern (class in emodpy.emod_file) migrations (emodpy.emod_task.EMODTask attribute) MigrationTypes (class in emodpy.emod_file) module emodpy emodpy.analyzers emodpy.analyzers.adult_vectors_analyzer emodpy.analyzers.population_analyzer emodpy.analyzers.timeseries_analyzer emodpy.campaign emodpy.campaign.base_intervention emodpy.campaign.common emodpy.campaign.distributor emodpy.campaign.emod_campaign emodpy.campaign.event emodpy.campaign.event_coordinator emodpy.campaign.individual_intervention emodpy.campaign.node_intervention emodpy.campaign.utils emodpy.campaign.waning_config emodpy.emod_file emodpy.emod_task emodpy.generic emodpy.generic.serialization emodpy.reporters emodpy.reporters.base emodpy.reporters.common emodpy.utils emodpy.utils.collections_utils emodpy.utils.distributions emodpy.utils.emod_constants emodpy.utils.emod_enum emodpy.utils.targeting_config

MortalityBlocking (emodpy.utils.emod_enum.VaccineType attribute) MultiEffectBoosterVaccine (class in emodpy.campaign.individual_intervention) MultiEffectVaccine (class in emodpy.campaign.individual_intervention) MultiInterventionDistributor (class in emodpy.campaign.individual_intervention) MultiNodeInterventionDistributor (class in emodpy.campaign.node_intervention)

N

New_Infections (emodpy.reporters.common.SpatialReportChannels attribute) New_Reported_Infections (emodpy.reporters.common.SpatialReportChannels attribute) NO_MIGRATION (emodpy.emod_file.MigrationModel attribute) NodeIntervention (class in emodpy.campaign.base_intervention) (emodpy.campaign.base_intervention.InterventionType attribute)

NodePropertyValueChanger (class in emodpy.campaign.node_intervention) NodeSelectionType (class in emodpy.utils.emod_enum) NOT_INITIALIZED (emodpy.utils.emod_enum.DistributionType attribute)

O

ordered_levels (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer attribute) Outbreak (class in emodpy.campaign.node_intervention)

OutbreakIndividual (class in emodpy.campaign.individual_intervention) output_file (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer attribute)

P

plot_by_channel() (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer method) POISSON_DISTRIBUTION (emodpy.utils.emod_enum.DistributionType attribute) PoissonDistribution (class in emodpy.utils.distributions) Population (emodpy.reporters.common.SpatialReportChannels attribute) PopulationAnalyzer (class in emodpy.analyzers.population_analyzer)

pre_creation() (emodpy.emod_task.EMODTask method) Prevalence (emodpy.reporters.common.SpatialReportChannels attribute) PropertyReport (class in emodpy.reporters.common) PropertyRestrictions (class in emodpy.campaign.common) PropertyValueChanger (class in emodpy.campaign.individual_intervention) py_path_list (emodpy.emod_task.EMODTask attribute)

R

RAINFALL (emodpy.emod_file.ClimateFileType attribute) RANDOM_WALK_DIFFUSION (emodpy.emod_file.MigrationPattern attribute) RandomBox (class in emodpy.campaign.waning_config) read_config_file() (emodpy.emod_file.ClimateFiles method) (emodpy.emod_file.MigrationFiles method) reduce() (emodpy.analyzers.adult_vectors_analyzer.AdultVectorsAnalyzer method) (emodpy.analyzers.population_analyzer.PopulationAnalyzer method) (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer method) REGIONAL (emodpy.emod_file.MigrationTypes attribute) RELATIVE_HUMIDITY (emodpy.emod_file.ClimateFileType attribute) reload_from_simulation() (emodpy.emod_task.EMODTask method) RepetitionConfig (class in emodpy.campaign.common) ReportCoordinatorEventRecorder (class in emodpy.reporters.common)

ReportDrugStatus (class in emodpy.reporters.common) Reporters (class in emodpy.reporters.base) reporters (emodpy.emod_task.EMODTask attribute) ReportEventCounter (class in emodpy.reporters.common) ReportEventRecorder (class in emodpy.reporters.common) ReportFilter (class in emodpy.reporters.base) ReportHumanMigrationTracking (class in emodpy.reporters.common) ReportInfectionDuration (class in emodpy.reporters.common) ReportNodeDemographics (class in emodpy.reporters.common) ReportNodeEventRecorder (class in emodpy.reporters.common) ReportPluginAgeAtInfection (class in emodpy.reporters.common) ReportPluginAgeAtInfectionHistogram (class in emodpy.reporters.common) ReportSimulationStats (class in emodpy.reporters.common) ReportSurveillanceEventRecorder (class in emodpy.reporters.common)

S

schema_path (emodpy.emod_task.EMODTask attribute) SEA (emodpy.emod_file.MigrationTypes attribute) SensitivityType (class in emodpy.utils.emod_enum) set_all_persisted() (emodpy.emod_file.MigrationFiles method) set_climate_constant() (emodpy.emod_file.ClimateFiles method) set_command_line() (emodpy.emod_task.EMODTask method) set_event() (in module emodpy.campaign.utils) set_intervention_distribution() (emodpy.utils.distributions.BaseDistribution method) (emodpy.utils.distributions.BimodalDistribution method) (emodpy.utils.distributions.ConstantDistribution method) (emodpy.utils.distributions.DualConstantDistribution method) (emodpy.utils.distributions.DualExponentialDistribution method) (emodpy.utils.distributions.ExponentialDistribution method) (emodpy.utils.distributions.GaussianDistribution method) (emodpy.utils.distributions.LogNormalDistribution method) (emodpy.utils.distributions.PoissonDistribution method) (emodpy.utils.distributions.UniformDistribution method) (emodpy.utils.distributions.WeibullDistribution method) set_intervention_list() (emodpy.campaign.event_coordinator.InterventionDistributorEventCoordinator method) set_parameter() (emodpy.emod_task.EMODTask method) set_parameter_partial() (emodpy.emod_task.EMODTask class method)

set_parameter_sweep_callback() (emodpy.emod_task.EMODTask static method) set_sif() (emodpy.emod_task.EMODTask method) set_task_config() (emodpy.emod_file.ClimateFiles method) (emodpy.emod_file.DemographicsFiles method) (emodpy.emod_file.InputFilesList method) (emodpy.emod_file.MigrationFiles method) (emodpy.reporters.base.Reporters method) SettingType (class in emodpy.utils.emod_enum) sif_filename (emodpy.emod_task.EMODTask attribute) sif_path (emodpy.emod_task.EMODTask attribute) SimpleBoosterVaccine (class in emodpy.campaign.individual_intervention) SimpleVaccine (class in emodpy.campaign.individual_intervention) simulation_demographics (emodpy.emod_task.EMODTask attribute) simulation_migrations (emodpy.emod_task.EMODTask attribute) SINGLE_ROUND_TRIPS (emodpy.emod_file.MigrationPattern attribute) SINGLE_VALUE (emodpy.utils.emod_enum.SensitivityType attribute) SpatialReport (class in emodpy.reporters.common) SpatialReportChannels (class in emodpy.reporters.common) SqlReport (class in emodpy.reporters.common) StandardDiagnostic (class in emodpy.campaign.individual_intervention) StandardEventCoordinator (class in emodpy.campaign.event_coordinator) StrEnum (class in emodpy.utils.emod_enum)

T

TargetDemographicsConfig (class in emodpy.campaign.common) TargetGender (class in emodpy.campaign.common) task template TimeseriesAnalyzer (class in emodpy.analyzers.timeseries_analyzer) to_dict() (emodpy.reporters.base.AbstractBaseReporter method) (emodpy.reporters.base.BuiltInReporter method) (emodpy.reporters.base.ConfigReporter method) to_schema_dict() (emodpy.campaign.common.ValueMap method) (emodpy.campaign.event.BaseEvent method) (emodpy.campaign.event.CampaignEvent method) (emodpy.campaign.event.CampaignEventByYear method) (emodpy.campaign.event_coordinator.BaseEventCoordinator method) (emodpy.campaign.individual_intervention.IVCalendar.AgeAndProbability method) (emodpy.campaign.waning_config.AbstractWaningConfig method) (emodpy.campaign.waning_config.BaseWaningConfig method) (emodpy.campaign.waning_config.Box method) (emodpy.campaign.waning_config.BoxExponential method) (emodpy.campaign.waning_config.Combo method) (emodpy.campaign.waning_config.Constant method) (emodpy.campaign.waning_config.Exponential method) (emodpy.campaign.waning_config.MapLinear method) (emodpy.campaign.waning_config.MapLinearAge method) (emodpy.campaign.waning_config.MapLinearSeasonal method) (emodpy.campaign.waning_config.MapPiecewise method) (emodpy.campaign.waning_config.RandomBox method) (emodpy.utils.targeting_config.AbstractTargetingConfig method) (emodpy.utils.targeting_config.HasIntervention method) (emodpy.utils.targeting_config.HasIP method)

to_simple_dict() (emodpy.utils.targeting_config.AbstractTargetingConfig method) TransmissionBlocking (emodpy.utils.emod_enum.VaccineType attribute)

U

UNIFORM_DISTRIBUTION (emodpy.utils.emod_enum.DistributionType attribute) UniformDistribution (class in emodpy.utils.distributions)

update_migration_pattern() (emodpy.emod_file.MigrationFiles method) use_embedded_python (emodpy.emod_task.EMODTask attribute) USER_SPECIFIED (emodpy.utils.emod_enum.SettingType attribute)

V

VaccineType (class in emodpy.utils.emod_enum) validate_bins() (in module emodpy.utils) validate_coordinator_event() (in module emodpy.utils) validate_individual_event() (in module emodpy.utils) validate_individual_property() (in module emodpy.utils) validate_intervention_list() (emodpy.campaign.event_coordinator.InterventionDistributorEventCoordinator method) validate_intervention_name() (in module emodpy.utils) validate_key_value_pair() (in module emodpy.utils)

validate_list_of_strings() (in module emodpy.utils) validate_node_event() (in module emodpy.utils) validate_node_ids() (in module emodpy.utils) validate_node_property() (in module emodpy.utils) validate_surveillance_event() (in module emodpy.utils) validate_value_range() (in module emodpy.utils) ValueMap (class in emodpy.campaign.common) VERSUS_TIME (emodpy.utils.emod_enum.SensitivityType attribute)

W

WAYPOINTS_HOME (emodpy.emod_file.MigrationPattern attribute)

WEIBULL_DISTRIBUTION (emodpy.utils.emod_enum.DistributionType attribute) WeibullDistribution (class in emodpy.utils.distributions)