emodpy
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Parameter sweeps and model iteration
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Serialization
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Frequently asked questions
Glossary
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A
add_climate_files() (emodpy.emod_file.ClimateFiles method)
add_demographics_from_dict() (emodpy.emod_file.DemographicsFiles method)
add_demographics_from_file() (emodpy.emod_file.DemographicsFiles method)
add_dll() (emodpy.reporters.base.Reporters method)
add_dll_folder() (emodpy.reporters.base.Reporters method)
add_ep4_from_path() (in module emodpy.emod_task)
add_event() (emodpy.emod_campaign.EMODCampaign method)
add_events() (emodpy.emod_campaign.EMODCampaign method)
add_migration_from_file() (emodpy.emod_file.MigrationFiles method)
add_py_path() (emodpy.emod_task.EMODTask method)
add_reporter() (emodpy.reporters.base.Reporters method)
add_serialization_timesteps() (in module emodpy.generic.serialization)
AdultVectorsAnalyzer (class in emodpy.analyzers.adult_vectors_analyzer)
Age_Bins (emodpy.reporters.builtin.ReportNodeDemographics attribute)
age_bins (emodpy.reporters.custom.ReportAgeAtInfectionHistogramPlugin attribute)
AIR (emodpy.emod_file.MigrationTypes attribute)
AIR_TEMPERATURE (emodpy.emod_file.ClimateFileType attribute)
ALL (emodpy.utils.BambooArtifact attribute)
application() (in module emodpy.defaults.ep4.dtk_in_process)
(in module emodpy.defaults.ep4.dtk_post_process)
(in module emodpy.defaults.ep4.dtk_pre_process)
asset collection
assets
B
bamboo_api_login() (in module emodpy.utils)
bamboo_connection() (in module emodpy.bamboo_api_utils)
BambooArtifact (class in emodpy.utils)
BambooConnection (class in emodpy.bamboo_api_utils)
BaseReporter (class in emodpy.reporters.base)
build_passed() (emodpy.bamboo_api_utils.BuildInfo class method)
BuildArtifacts (class in emodpy.bamboo_api_utils)
builder
BuildInfo (class in emodpy.bamboo_api_utils)
BuildPlans (class in emodpy.bamboo_api_utils)
BuiltInReporter (class in emodpy.reporters.base)
C
cache_experiment_metadata_in_sql() (emodpy.emod_task.EMODTask class method)
campaign (emodpy.emod_task.EMODTask attribute)
campaign() (emodpy.defaults.emod_sir.EMODSir static method)
(emodpy.defaults.iemod_default.IEMODDefault method)
(emodpy.interventions.emod_empty_campaign.EMODEmptyCampaign static method)
class_name (emodpy.reporters.base.BuiltInReporter attribute)
(emodpy.reporters.builtin.ReportNodeDemographics attribute)
clear() (emodpy.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)
config (emodpy.emod_task.EMODTask attribute)
config() (emodpy.defaults.emod_sir.EMODSir static method)
(emodpy.defaults.iemod_default.IEMODDefault method)
(emodpy.reporters.builtin.ReportHumanMigrationTracking method)
config_file_name (emodpy.emod_task.EMODTask attribute)
configure_report() (emodpy.reporters.custom.ReportEventCounter method)
(emodpy.reporters.custom.ReportNodeDemographics method)
convert_plugin_reports() (in module emodpy.defaults.ep4.dtk_pre_process)
copy_simulation() (emodpy.emod_task.EMODTask method)
create_campaign_from_callback() (emodpy.emod_task.EMODTask method)
create_demog_from_callback() (emodpy.emod_task.EMODTask method)
CustomReporter (class in emodpy.reporters.base)
cut_iterable_to() (in module emodpy.collections_utils)
D
data_group_names (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer attribute)
deep_del() (in module emodpy.collections_utils)
deep_get() (in module emodpy.collections_utils)
deep_set() (in module emodpy.collections_utils)
default_ep4_fn() (in module emodpy.emod_task)
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)
demographics (emodpy.emod_task.EMODTask attribute)
demographics() (emodpy.defaults.emod_sir.EMODSir static method)
(emodpy.defaults.iemod_default.IEMODDefault method)
DemographicsFiles (class in emodpy.emod_file)
DENGUE (emodpy.utils.EradicationBambooBuilds attribute)
DENGUE_LINUX (emodpy.utils.EradicationBambooBuilds attribute)
DENGUE_WIN (emodpy.utils.EradicationBambooBuilds attribute)
dev_mode (in module emodpy.emod_task)
disable() (emodpy.reporters.base.CustomReporter method)
dll_file (emodpy.reporters.base.CustomReporter attribute)
(emodpy.reporters.custom.ReportAgeAtInfectionHistogramPlugin attribute)
(emodpy.reporters.custom.ReportEventCounter attribute)
(emodpy.reporters.custom.ReportHumanMigrationTracking attribute)
(emodpy.reporters.custom.ReportNodeDemographics attribute)
download_artifact_to_file() (emodpy.bamboo_api_utils.BuildArtifacts class method)
download_artifacts_to_path() (emodpy.bamboo_api_utils.BuildArtifacts class method)
download_bamboo_artifacts() (in module emodpy.utils)
download_eradication() (in module emodpy.utils)
download_eradication_exe() (emodpy.bamboo_api_utils.BuildArtifacts class method)
download_file() (emodpy.bamboo_api_utils.BambooConnection method)
download_from_bamboo_url() (emodpy.bamboo_api_utils.BuildArtifacts class method)
download_from_url() (in module emodpy.utils)
download_latest_bamboo() (in module emodpy.utils)
download_latest_eradication() (in module emodpy.utils)
download_latest_good_Eradication_exe() (emodpy.bamboo_api_utils.BuildArtifacts class method)
download_latest_good_schema_json() (emodpy.bamboo_api_utils.BuildArtifacts class method)
download_latest_reporters() (in module emodpy.utils)
download_latest_schema() (in module emodpy.utils)
download_schema_json() (emodpy.bamboo_api_utils.BuildArtifacts class method)
E
EMOD_RELEASE (emodpy.utils.EradicationBambooBuilds attribute)
EMODCampaign (class in emodpy.emod_campaign)
EMODEmptyCampaign (class in emodpy.interventions.emod_empty_campaign)
emodpy
module
emodpy.analyzers
module
emodpy.analyzers.adult_vectors_analyzer
module
emodpy.analyzers.population_analyzer
module
emodpy.analyzers.timeseries_analyzer
module
emodpy.bamboo
module
emodpy.bamboo_api_utils
module
emodpy.collections_utils
module
emodpy.defaults
module
emodpy.defaults.emod_sir
module
emodpy.defaults.ep4
module
emodpy.defaults.ep4.dtk_in_process
module
emodpy.defaults.ep4.dtk_post_process
module
emodpy.defaults.ep4.dtk_pre_process
module
emodpy.defaults.iemod_default
module
emodpy.emod_campaign
module
emodpy.emod_file
module
emodpy.emod_task
module
emodpy.generic
module
emodpy.generic.serialization
module
emodpy.interventions
module
emodpy.interventions.emod_empty_campaign
module
emodpy.reporters
module
emodpy.reporters.base
module
emodpy.reporters.builtin
module
emodpy.reporters.custom
module
emodpy.utils
module
EMODSir (class in emodpy.defaults.emod_sir)
EMODTask (class in emodpy.emod_task)
EMODTaskSpecification (class in emodpy.emod_task)
empty (emodpy.reporters.base.Reporters property)
enable() (emodpy.reporters.base.CustomReporter method)
enable_migration() (emodpy.emod_file.MigrationFiles method)
enable_serialization() (in module emodpy.generic.serialization)
Enabled (emodpy.reporters.base.BuiltInReporter attribute)
(emodpy.reporters.base.CustomReporter attribute)
ensure_logged_in() (emodpy.bamboo_api_utils.BambooConnection method)
ERADICATION (emodpy.utils.BambooArtifact attribute)
ERADICATION_EXE (emodpy.bamboo_api_utils.BuildArtifacts attribute)
eradication_path (emodpy.emod_task.EMODTask attribute)
EradicationBambooBuilds (class in emodpy.utils)
EradicationPlatformExtension (class in emodpy.utils)
experiment
export_spec() (emodpy.bamboo_api_utils.BuildPlans static method)
F
FAMILY (emodpy.emod_file.MigrationTypes attribute)
filter() (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer method)
find_all_artifact_names() (emodpy.bamboo_api_utils.BuildArtifacts class method)
find_all_artifacts() (emodpy.bamboo_api_utils.BuildArtifacts class method)
find_artifacts() (emodpy.bamboo_api_utils.BuildArtifacts class method)
find_artifacts_by_name() (emodpy.bamboo_api_utils.BuildArtifacts class method)
find_build_essential_artifacts() (emodpy.bamboo_api_utils.BuildArtifacts class method)
find_server() (emodpy.bamboo_api_utils.BambooConnection method)
FIXED_RATE_MIGRATION (emodpy.emod_file.MigrationModel attribute)
FP (emodpy.utils.EradicationBambooBuilds attribute)
FP_LINUX (emodpy.utils.EradicationBambooBuilds attribute)
FP_WIN (emodpy.utils.EradicationBambooBuilds attribute)
from_default2() (emodpy.emod_task.EMODTask class method)
from_dict() (emodpy.reporters.base.BaseReporter method)
(emodpy.reporters.base.BuiltInReporter 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)
(emodpy.reporters.base.Reporters method)
gather_common_assets() (emodpy.emod_task.EMODTask method)
gather_transient_assets() (emodpy.emod_task.EMODTask method)
GENERIC (emodpy.utils.EradicationBambooBuilds attribute)
GENERIC_LINUX (emodpy.utils.EradicationBambooBuilds attribute)
GENERIC_WIN (emodpy.utils.EradicationBambooBuilds attribute)
get() (emodpy.emod_task.EMODTaskSpecification method)
get_bamboo_api_url() (emodpy.bamboo_api_utils.BambooConnection method)
get_bamboo_url() (emodpy.bamboo_api_utils.BambooConnection method)
get_build_info() (emodpy.bamboo_api_utils.BuildInfo static method)
get_channel_data() (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer method)
get_description() (emodpy.emod_task.EMODTaskSpecification method)
get_events_at() (emodpy.emod_campaign.EMODCampaign method)
get_events_with_name() (emodpy.emod_campaign.EMODCampaign method)
get_example_urls() (emodpy.emod_task.EMODTaskSpecification method)
get_file_from_comps() (emodpy.emod_task.EMODTask class method)
get_github_eradication_url() (in module emodpy.utils)
get_latest_build() (emodpy.bamboo_api_utils.BuildInfo class method)
get_latest_successful_build() (emodpy.bamboo_api_utils.BuildInfo class method)
get_model_files() (in module emodpy.bamboo)
get_parameter() (emodpy.emod_task.EMODTask method)
get_plans_for_project() (emodpy.bamboo_api_utils.BuildPlans static method)
get_server_url() (emodpy.bamboo_api_utils.BambooConnection method)
get_type() (emodpy.emod_task.EMODTaskSpecification method)
get_version() (emodpy.emod_task.EMODTaskSpecification method)
H
handle_experiment_completion() (emodpy.emod_task.EMODTask class method)
handle_implicit_configs() (emodpy.emod_task.EMODTask method)
high-performance computing (HPC)
HIV (emodpy.utils.EradicationBambooBuilds attribute)
HIV_LINUX (emodpy.utils.EradicationBambooBuilds attribute)
HIV_WIN (emodpy.utils.EradicationBambooBuilds attribute)
I
IEMODDefault (class in emodpy.defaults.iemod_default)
implicit_configs (emodpy.emod_task.EMODTask 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)
interval_years (emodpy.reporters.custom.ReportAgeAtInfectionHistogramPlugin attribute)
is_linux (emodpy.emod_task.EMODTask attribute)
J
json (emodpy.emod_campaign.EMODCampaign property)
(emodpy.reporters.base.Reporters property)
L
LAND_TEMPERATURE (emodpy.emod_file.ClimateFileType attribute)
LINUX (emodpy.utils.EradicationPlatformExtension attribute)
load_files() (emodpy.emod_task.EMODTask method)
load_from_dict() (emodpy.emod_campaign.EMODCampaign static method)
load_from_file() (emodpy.emod_campaign.EMODCampaign static method)
load_serialized_population() (in module emodpy.generic.serialization)
load_session_cookie() (emodpy.bamboo_api_utils.BambooConnection method)
LOCAL (emodpy.emod_file.MigrationTypes attribute)
login() (emodpy.bamboo_api_utils.BambooConnection method)
(in module emodpy.bamboo_api_utils)
login_session_exists() (emodpy.bamboo_api_utils.BambooConnection method)
M
make_api_get_request() (emodpy.bamboo_api_utils.BambooConnection method)
make_exe_executable() (emodpy.bamboo_api_utils.BuildArtifacts class method)
make_get_request() (emodpy.bamboo_api_utils.BambooConnection method)
MALARIA (emodpy.utils.EradicationBambooBuilds attribute)
MALARIA_LINUX (emodpy.utils.EradicationBambooBuilds attribute)
MALARIA_WIN (emodpy.utils.EradicationBambooBuilds attribute)
map() (emodpy.analyzers.adult_vectors_analyzer.AdultVectorsAnalyzer method)
(emodpy.analyzers.population_analyzer.PopulationAnalyzer method)
(emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer method)
merge_with() (emodpy.emod_file.MigrationFiles method)
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.bamboo
emodpy.bamboo_api_utils
emodpy.collections_utils
emodpy.defaults
emodpy.defaults.emod_sir
emodpy.defaults.ep4
emodpy.defaults.ep4.dtk_in_process
emodpy.defaults.ep4.dtk_post_process
emodpy.defaults.ep4.dtk_pre_process
emodpy.defaults.iemod_default
emodpy.emod_campaign
emodpy.emod_file
emodpy.emod_task
emodpy.generic
emodpy.generic.serialization
emodpy.interventions
emodpy.interventions.emod_empty_campaign
emodpy.reporters
emodpy.reporters.base
emodpy.reporters.builtin
emodpy.reporters.custom
emodpy.utils
N
name (emodpy.reporters.base.CustomReporter attribute)
(emodpy.reporters.custom.ReportAgeAtInfectionHistogramPlugin attribute)
(emodpy.reporters.custom.ReportEventCounter attribute)
(emodpy.reporters.custom.ReportHumanMigrationTracking attribute)
(emodpy.reporters.custom.ReportNodeDemographics attribute)
NO_MIGRATION (emodpy.emod_file.MigrationModel attribute)
normalize_url() (emodpy.bamboo_api_utils.BambooConnection method)
O
ordered_levels (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer attribute)
output_file (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer attribute)
P
parameters (emodpy.reporters.base.BuiltInReporter attribute)
(emodpy.reporters.builtin.ReportHumanMigrationTracking attribute)
plot_by_channel() (emodpy.analyzers.timeseries_analyzer.TimeseriesAnalyzer method)
PLUGINS (emodpy.utils.BambooArtifact attribute)
PopulationAnalyzer (class in emodpy.analyzers.population_analyzer)
pre_creation() (emodpy.emod_task.EMODTask method)
Pretty_Format (emodpy.reporters.base.BuiltInReporter attribute)
process_simulation() (emodpy.defaults.iemod_default.IEMODDefault method)
py_path_list (emodpy.emod_task.EMODTask attribute)
R
RAINFALL (emodpy.emod_file.ClimateFileType attribute)
RANDOM_WALK_DIFFUSION (emodpy.emod_file.MigrationPattern attribute)
read_config_file() (emodpy.emod_file.ClimateFiles method)
(emodpy.emod_file.MigrationFiles method)
read_custom_reports_file() (emodpy.reporters.base.Reporters 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)
RELEASE (emodpy.utils.EradicationBambooBuilds attribute)
reload_from_simulation() (emodpy.emod_task.EMODTask method)
ReportAgeAtInfectionHistogramPlugin (class in emodpy.reporters.custom)
REPORTER_PLUGINS (emodpy.bamboo_api_utils.BuildArtifacts attribute)
Reporters (class in emodpy.reporters.base)
reporters (emodpy.emod_task.EMODTask attribute)
ReportEventCounter (class in emodpy.reporters.custom)
ReportHumanMigrationTracking (class in emodpy.reporters.builtin)
(class in emodpy.reporters.custom)
ReportNodeDemographics (class in emodpy.reporters.builtin)
(class in emodpy.reporters.custom)
Reports (emodpy.reporters.base.CustomReporter attribute)
(emodpy.reporters.custom.ReportAgeAtInfectionHistogramPlugin attribute)
(emodpy.reporters.custom.ReportHumanMigrationTracking attribute)
S
save_bamboo_credentials() (in module emodpy.utils)
save_credentials() (emodpy.bamboo_api_utils.BambooConnection method)
(in module emodpy.bamboo_api_utils)
SCHEMA (emodpy.utils.BambooArtifact attribute)
SCHEMA_JSON (emodpy.bamboo_api_utils.BuildArtifacts attribute)
SEA (emodpy.emod_file.MigrationTypes attribute)
server (emodpy.bamboo_api_utils.BambooConnection property)
session_cookie (emodpy.bamboo_api_utils.BambooConnection property)
session_cookie_filename (emodpy.bamboo_api_utils.BambooConnection property)
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_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)
sif_filename (emodpy.emod_task.EMODTask attribute)
sif_path (emodpy.emod_task.EMODTask attribute)
simulation_demographics (emodpy.emod_task.EMODTask attribute)
simulation_migrations (emodpy.emod_task.EMODTask attribute)
SINGLE_ROUND_TRIPS (emodpy.emod_file.MigrationPattern attribute)
Stratify_By_Gender (emodpy.reporters.builtin.ReportNodeDemographics attribute)
successful_build_result() (emodpy.bamboo_api_utils.BuildInfo static method)
T
task
TBHIV (emodpy.utils.EradicationBambooBuilds attribute)
TBHIV_LINUX (emodpy.utils.EradicationBambooBuilds attribute)
TBHIV_WIN (emodpy.utils.EradicationBambooBuilds attribute)
template
TimeseriesAnalyzer (class in emodpy.analyzers.timeseries_analyzer)
to_dict() (emodpy.reporters.base.BaseReporter method)
(emodpy.reporters.base.BuiltInReporter method)
(emodpy.reporters.base.CustomReporter method)
TYPHOID (emodpy.utils.EradicationBambooBuilds attribute)
TYPHOID_LINUX (emodpy.utils.EradicationBambooBuilds attribute)
TYPHOID_WIN (emodpy.utils.EradicationBambooBuilds attribute)
U
update_migration_pattern() (emodpy.emod_file.MigrationFiles method)
update_parameters() (emodpy.emod_task.EMODTask method)
url_exists() (emodpy.bamboo_api_utils.BambooConnection method)
use_embedded_python (emodpy.emod_task.EMODTask attribute)
W
WAYPOINTS_HOME (emodpy.emod_file.MigrationPattern attribute)
Windows (emodpy.utils.EradicationPlatformExtension attribute)
write_session_cookie() (emodpy.bamboo_api_utils.BambooConnection method)
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