cowidev

• cowidev.cmd
  • cowidev.cmd.commons
    • cowidev.cmd.commons.get
      • CountryDataGetter
      • _build_df_execution()
      • _build_df_status()
      • _build_server_message()
      • _load_modules_order()
      • _print_timing()
      • _retry_modules_failed()
      • export_status()
      • main_get_data()
    • cowidev.cmd.commons.utils
      • Country2Module
      • OptionEatAll
      • OrderedGroup
      • PythonLiteralOption
      • StepReport
      • _comma_separated_to_list()
      • feedback_log()
      • normalize_country_name()
  • cowidev.cmd.testing
    • cowidev.cmd.testing.core
    • cowidev.cmd.testing.get
  • cowidev.cmd.vax
    • cowidev.cmd.vax.generate
      • cowidev.cmd.vax.generate.generate
      • cowidev.cmd.vax.generate.utils
    • cowidev.cmd.vax.process
      • cowidev.cmd.vax.process.process
      • cowidev.cmd.vax.process.utils
    • cowidev.cmd.vax.track
      • cowidev.cmd.vax.track.countries
      • cowidev.cmd.vax.track.track
      • cowidev.cmd.vax.track.vaccines
    • cowidev.cmd.vax.core
    • cowidev.cmd.vax.export
    • cowidev.cmd.vax.get
    • cowidev.cmd.vax.icer
    • cowidev.cmd.vax.us
  • cowidev.cmd.__main__
  • cowidev.cmd.check
    • check_updated()
  • cowidev.cmd.decoupling
  • cowidev.cmd.gmobility
  • cowidev.cmd.hosp
  • cowidev.cmd.jhu
  • cowidev.cmd.megafile
  • cowidev.cmd.oxcgrt
  • cowidev.cmd.sweden
  • cowidev.cmd.uk_nations
  • cowidev.cmd.variants
  • cowidev.cmd.xm
• cowidev.gmobility
  • cowidev.gmobility.__main__
    • run_step()
  • cowidev.gmobility._parser
    • _parse_args()
  • cowidev.gmobility.dtypes
  • cowidev.gmobility.etl
    • GMobilityETL
      • GMobilityETL.extract()
      • GMobilityETL.load()
      • GMobilityETL.run()
      • GMobilityETL.source_url
    • run_etl()
  • cowidev.gmobility.grapher
    • run_db_updater()
    • run_grapheriser()
• cowidev.grapher
  • cowidev.grapher.db
    • cowidev.grapher.db.procs
      • cowidev.grapher.db.procs.testing
      • cowidev.grapher.db.procs.variants
      • cowidev.grapher.db.procs.vax
      • cowidev.grapher.db.procs.vax_age
      • cowidev.grapher.db.procs.vax_manufacturer
      • cowidev.grapher.db.procs.vax_us
      • cowidev.grapher.db.procs.yougov
      • cowidev.grapher.db.procs.yougov_composite
    • cowidev.grapher.db.utils
      • cowidev.grapher.db.utils.db
      • cowidev.grapher.db.utils.db_imports
      • cowidev.grapher.db.utils.db_utils
      • cowidev.grapher.db.utils.slack_client
      • cowidev.grapher.db.utils.utils
    • cowidev.grapher.db.__main__
      • main()
    • cowidev.grapher.db.base
      • GrapherBaseUpdater
  • cowidev.grapher.files
    • cowidev.grapher.files.explorer
      • Exploriser
    • cowidev.grapher.files.grapher
      • Grapheriser
      • Exploriser
      • Grapheriser
• cowidev.hosp
  • cowidev.hosp.sources
    • cowidev.hosp.sources.algeria
      • main()
    • cowidev.hosp.sources.argentina
      • main()
    • cowidev.hosp.sources.australia
      • main()
    • cowidev.hosp.sources.austria
      • main()
      • read()
    • cowidev.hosp.sources.belgium
      • main()
    • cowidev.hosp.sources.bolivia
      • main()
    • cowidev.hosp.sources.canada
      • main()
    • cowidev.hosp.sources.chile
      • main()
    • cowidev.hosp.sources.czechia
      • main()
    • cowidev.hosp.sources.denmark
      • main()
      • read()
    • cowidev.hosp.sources.ecdc
      • download_data()
      • main()
      • pipe_undo_100k()
      • pipe_week_to_date()
      • update_metadata()
    • cowidev.hosp.sources.finland
      • main()
    • cowidev.hosp.sources.france
      • main()
    • cowidev.hosp.sources.germany
      • main()
    • cowidev.hosp.sources.israel
      • main()
    • cowidev.hosp.sources.italy
      • main()
    • cowidev.hosp.sources.japan
      • main()
    • cowidev.hosp.sources.malaysia
      • main()
    • cowidev.hosp.sources.netherlands
      • main()
    • cowidev.hosp.sources.portugal
      • main()
    • cowidev.hosp.sources.russia
      • main()
    • cowidev.hosp.sources.serbia
      • main()
    • cowidev.hosp.sources.singapore
      • import_flow()
      • main()
    • cowidev.hosp.sources.south_africa
      • main()
    • cowidev.hosp.sources.south_korea
      • main()
    • cowidev.hosp.sources.spain
      • main()
    • cowidev.hosp.sources.sweden
      • main()
    • cowidev.hosp.sources.switzerland
      • main()
    • cowidev.hosp.sources.united_kingdom
      • main()
    • cowidev.hosp.sources.united_states
      • main()
  • cowidev.hosp.__main__
    • run_step()
  • cowidev.hosp._parser
    • _parse_args()
  • cowidev.hosp.countries
  • cowidev.hosp.etl
    • HospETL
      • HospETL._build_metadata()
      • HospETL._build_time_df()
      • HospETL._check_fields_df()
      • HospETL._execution_summary()
      • HospETL._extract_entity()
      • HospETL.extract()
      • HospETL.extract_collect()
      • HospETL.extract_export_checkpoint()
      • HospETL.extract_process()
      • HospETL.load()
      • HospETL.pipe_metadata()
      • HospETL.pipe_per_million()
      • HospETL.pipe_round_values()
      • HospETL.run()
      • HospETL.transform()
      • HospETL.transform_meta()
    • run_etl()
  • cowidev.hosp.grapher
    • _date_to_owid_year()
    • _owid_format()
    • run_db_updater()
    • run_grapheriser()
• cowidev.jhu
  • cowidev.jhu.__main__
    • check_data_correctness()
    • download_csv()
    • export()
    • generate_dataset()
    • update_db()
  • cowidev.jhu._parser
    • _parse_args()
  • cowidev.jhu.load
    • _correct_regions()
    • _find_closest_year_row()
    • _format_date()
    • _get_daily_metric()
    • _get_metric()
    • _load_raw_data()
    • _load_raw_locations()
    • _start_cutoff()
    • _subregion_to_region()
    • load_data()
    • load_eu_country_names()
    • load_owid_continents()
    • load_population()
    • load_wb_income_groups()
  • cowidev.jhu.process
    • _apply_row_cfr_100()
    • _date_diff()
    • _days_since()
    • _get_date_of_threshold()
    • _inject_growth()
    • _sum_aggregate()
    • discard_rows()
    • drop_population()
    • existsin()
    • hide_recent_zeros()
    • inject_biweekly_growth()
    • inject_cfr()
    • inject_days_since()
    • inject_doubling_days()
    • inject_exemplars()
    • inject_owid_aggregates()
    • inject_per_million()
    • inject_population()
    • inject_rolling_avg()
    • inject_total_daily_cols()
    • inject_weekly_growth()
    • pct_change_to_doubling_days()
    • standard_export()
    • standardize_data()
  • cowidev.jhu.subnational
    • clean_global_subnational()
    • clean_us_subnational()
    • create_subnational()
  • cowidev.jhu.utils
    • print_err()
• cowidev.megafile
  • cowidev.megafile.export
    • cowidev.megafile.export.annotations
      • AnnotatorInternal
      • add_annotations_countries_100_percentage()
    • cowidev.megafile.export.html
      • generate_htmls()
      • pipe_vax_locations_to_html()
    • cowidev.megafile.export.internal
      • add_fully_vaccinated_no_boosters()
      • add_partially_vaccinated()
      • add_total_vaccinations_no_boosters()
      • country_vax_data_partly()
      • create_internal()
      • df_to_columnar_json()
      • fillna_boosters_till_valid()
    • cowidev.megafile.export.public
      • create_dataset()
      • create_latest()
      • df_to_dict()
      • df_to_json()
    • cowidev.megafile.export.readme
      • _generate_category_notes()
      • _generate_category_notes_top()
      • generate_readme()
      • get_excluded_locations()
      • get_num_countries_by_iso()
      • get_num_countries_by_location()
      • get_num_countries_jhu()
      • get_placeholder()
      • get_variable_section()
      • load_macro_df()
    • cowidev.megafile.export.status
      • generate_status()
      • get_placeholder()
      • load_status_get()
      • load_status_process()
      • create_dataset()
      • create_internal()
      • create_latest()
      • generate_htmls()
      • generate_readme()
      • generate_status()
  • cowidev.megafile.steps
    • cowidev.megafile.steps.cgrt
      • clean_cgrt()
      • get_cgrt()
    • cowidev.megafile.steps.core
      • get_base_dataset()
    • cowidev.megafile.steps.hosp
      • get_hosp()
    • cowidev.megafile.steps.jhu
      • add_cumulative_deaths_last12m()
      • get_jhu()
    • cowidev.megafile.steps.macro
      • add_macro_variables()
    • cowidev.megafile.steps.reprod
      • get_reprod()
    • cowidev.megafile.steps.test
      • get_testing()
    • cowidev.megafile.steps.variants
      • get_variants()
      • read()
    • cowidev.megafile.steps.vax
      • _add_rolling()
      • add_rolling_vaccinations()
      • get_vax()
    • cowidev.megafile.steps.xm
      • _add_last12m_to_metric()
      • add_excess_mortality()
      • add_cumulative_deaths_last12m()
      • add_excess_mortality()
      • add_macro_variables()
      • add_rolling_vaccinations()
      • get_base_dataset()
  • cowidev.megafile.__main__
  • cowidev.megafile.generate
    • generate_megafile()
    • generate_timestamp()
• cowidev.oxcgrt
  • cowidev.oxcgrt.__main__
    • run_step()
  • cowidev.oxcgrt._parser
    • _parse_args()
  • cowidev.oxcgrt.etl
    • OxCGRTETL
      • OxCGRTETL._load_diff_data()
      • OxCGRTETL.extract()
      • OxCGRTETL.load()
      • OxCGRTETL.run()
      • OxCGRTETL.transform()
    • run_etl()
  • cowidev.oxcgrt.grapher
    • run_db_updater()
    • run_grapheriser()
• cowidev.testing
  • cowidev.testing.batch
    • cowidev.testing.batch.andorra
      • Andorra
      • main()
    • cowidev.testing.batch.argentina
      • Argentina
      • main()
    • cowidev.testing.batch.armenia
      • Armenia
      • main()
    • cowidev.testing.batch.australia
      • Australia
      • main()
    • cowidev.testing.batch.austria
      • Austria
      • main()
    • cowidev.testing.batch.belgium
      • Belgium
      • main()
    • cowidev.testing.batch.bolivia
      • Bolivia
      • main()
    • cowidev.testing.batch.bosnia_herzegovina
      • BosniaHerzegovina
      • main()
    • cowidev.testing.batch.brazil
      • Brazil
      • main()
    • cowidev.testing.batch.canada
      • Canada
      • main()
    • cowidev.testing.batch.chile
      • Chile
      • main()
    • cowidev.testing.batch.colombia
      • Colombia
      • main()
    • cowidev.testing.batch.costa_rica
      • CostaRica
      • main()
    • cowidev.testing.batch.cuba
      • Cuba
      • main()
    • cowidev.testing.batch.cyprus
      • Cyprus
      • main()
    • cowidev.testing.batch.czechia
      • Czechia
      • main()
    • cowidev.testing.batch.denmark
      • Denmark
      • main()
    • cowidev.testing.batch.ecdc
      • ECDC
      • main()
    • cowidev.testing.batch.ecuador
      • Ecuador
      • main()
    • cowidev.testing.batch.estonia
      • Estonia
      • main()
    • cowidev.testing.batch.finland
      • Finland
      • main()
    • cowidev.testing.batch.france
      • France
      • main()
    • cowidev.testing.batch.germany
      • Germany
      • main()
      • read_xlsx_from_url()
    • cowidev.testing.batch.guam
      • Guam
      • main()
    • cowidev.testing.batch.guatemala
      • Guatemala
      • main()
    • cowidev.testing.batch.hong_kong
      • HongKong
      • main()
    • cowidev.testing.batch.hungary
      • Hungary
      • main()
    • cowidev.testing.batch.iceland
      • Iceland
      • main()
    • cowidev.testing.batch.india
      • India
      • main()
    • cowidev.testing.batch.indonesia
      • Indonesia
      • main()
    • cowidev.testing.batch.ireland
      • Ireland
      • main()
      • sanity_checks()
    • cowidev.testing.batch.israel
      • Israel
      • main()
    • cowidev.testing.batch.italy
      • Italy
      • main()
    • cowidev.testing.batch.japan
      • Japan
      • main()
    • cowidev.testing.batch.kazakhstan
      • Kazakhstan
      • get_data()
      • main()
      • sanity_checks()
    • cowidev.testing.batch.latvia
      • Latvia
      • main()
    • cowidev.testing.batch.liechtenstein
      • Liechtenstein
      • main()
    • cowidev.testing.batch.lithuania
      • Lithuania
      • main()
    • cowidev.testing.batch.luxembourg
      • Luxembourg
      • main()
    • cowidev.testing.batch.malaysia
      • Malaysia
      • main()
    • cowidev.testing.batch.malta
      • Malta
      • main()
    • cowidev.testing.batch.marshall_islands
      • MarshallIslands
      • main()
    • cowidev.testing.batch.mexico
      • Mexico
      • main()
    • cowidev.testing.batch.netherlands
      • Netherlands
      • main()
    • cowidev.testing.batch.north_korea
      • NorthKorea
      • main()
    • cowidev.testing.batch.northern_mariana_islands
      • NorthernMarianaIslands
      • main()
    • cowidev.testing.batch.norway
      • Norway
      • main()
    • cowidev.testing.batch.peru
      • Peru
      • main()
    • cowidev.testing.batch.philippines
      • Philippines
      • main()
    • cowidev.testing.batch.portugal
      • Portugal
      • main()
    • cowidev.testing.batch.puerto_rico
      • PuertoRico
      • main()
    • cowidev.testing.batch.qatar
      • Qatar
      • main()
    • cowidev.testing.batch.rwanda
      • Rwanda
      • main()
    • cowidev.testing.batch.saudi_arabia
      • SaudiArabia
      • main()
    • cowidev.testing.batch.senegal
      • Senegal
      • main()
    • cowidev.testing.batch.serbia
      • Serbia
      • main()
    • cowidev.testing.batch.slovakia
      • Slovakia
      • main()
    • cowidev.testing.batch.slovenia
      • Slovenia
      • main()
    • cowidev.testing.batch.south_africa
      • SouthAfrica
      • main()
      • pipe_date()
      • pipe_drop_nan()
      • pipe_metrics()
    • cowidev.testing.batch.south_korea
      • SouthKorea
      • main()
    • cowidev.testing.batch.spain
      • Spain
      • main()
    • cowidev.testing.batch.sri_lanka
      • SriLanka
      • main()
    • cowidev.testing.batch.switzerland
      • Switzerland
      • main()
    • cowidev.testing.batch.taiwan
      • Taiwan
      • main()
    • cowidev.testing.batch.thailand
      • Thailand
      • main()
    • cowidev.testing.batch.trinidad_and_tobago
      • TrinidadAndTobago
      • main()
    • cowidev.testing.batch.turkey
      • Turkey
      • main()
    • cowidev.testing.batch.united_arab_emirates
      • UnitedArabEmirates
      • main()
    • cowidev.testing.batch.united_kingdom
      • UnitedKingdom
      • main()
    • cowidev.testing.batch.united_states
      • UnitedStates
      • main()
    • cowidev.testing.batch.united_states_virgin_islands
      • UnitedStatesVirginIslands
      • main()
    • cowidev.testing.batch.uruguay
      • Uruguay
      • main()
    • cowidev.testing.batch.zambia
      • Zambia
      • main()
  • cowidev.testing.incremental
    • cowidev.testing.incremental.africacdc
      • AfricaCDC
      • main()
    • cowidev.testing.incremental.albania
      • Albania
      • main()
    • cowidev.testing.incremental.antigua_barbuda
      • AntiguaBarbuda
      • main()
    • cowidev.testing.incremental.azerbaijan
      • Azerbaijan
      • main()
    • cowidev.testing.incremental.bahamas
      • Bahamas
      • main()
    • cowidev.testing.incremental.bahrain
      • Bahrain
      • main()
    • cowidev.testing.incremental.bangladesh
      • Bangladesh
      • main()
    • cowidev.testing.incremental.barbados
      • Barbados
      • main()
    • cowidev.testing.incremental.belarus
      • Belarus
      • main()
    • cowidev.testing.incremental.belize
      • Belize
      • main()
    • cowidev.testing.incremental.benin
      • Benin
      • main()
    • cowidev.testing.incremental.bulgaria
      • Bulgaria
      • main()
    • cowidev.testing.incremental.cambodia
      • Cambodia
      • main()
    • cowidev.testing.incremental.cape_verde
      • CapeVerde
      • main()
    • cowidev.testing.incremental.croatia
      • Croatia
      • main()
    • cowidev.testing.incremental.el_salvador
      • ElSalvador
      • main()
    • cowidev.testing.incremental.emro
      • EMRO
      • main()
    • cowidev.testing.incremental.equatorial_guinea
      • EquatorialGuinea
      • main()
    • cowidev.testing.incremental.faeroe_islands
      • FaeroeIslands
      • main()
    • cowidev.testing.incremental.fiji
      • Fiji
      • main()
    • cowidev.testing.incremental.georgia
      • Georgia
      • main()
    • cowidev.testing.incremental.gibraltar
      • Gibraltar
      • main()
    • cowidev.testing.incremental.greece
      • Greece
      • main()
    • cowidev.testing.incremental.haiti
      • Haiti
      • main()
    • cowidev.testing.incremental.iran
      • Iran
      • main()
    • cowidev.testing.incremental.jordan
      • Jordan
      • main()
    • cowidev.testing.incremental.kosovo
      • Kosovo
      • main()
    • cowidev.testing.incremental.laos
      • Laos
      • main()
    • cowidev.testing.incremental.lebanon
      • Lebanon
      • main()
    • cowidev.testing.incremental.libya
      • Libya
      • main()
    • cowidev.testing.incremental.maldives
      • Maldives
      • main()
    • cowidev.testing.incremental.moldova
      • Moldova
      • main()
    • cowidev.testing.incremental.mongolia
      • Mongolia
      • main()
    • cowidev.testing.incremental.morocco
      • Morocco
      • main()
    • cowidev.testing.incremental.myanmar
      • Myanmar
      • main()
    • cowidev.testing.incremental.nepal
      • Nepal
      • main()
    • cowidev.testing.incremental.new_zealand
      • NewZealand
      • main()
    • cowidev.testing.incremental.nicaragua
      • Nicaragua
      • main()
    • cowidev.testing.incremental.north_macedonia
      • NorthMacedonia
      • main()
    • cowidev.testing.incremental.pakistan
      • Pakistan
      • main()
    • cowidev.testing.incremental.palau
      • Palau
      • main()
    • cowidev.testing.incremental.papua_new_guinea
      • PapuaNewGuinea
      • main()
    • cowidev.testing.incremental.paraguay
      • Paraguay
      • main()
    • cowidev.testing.incremental.russia
      • Russia
      • main()
    • cowidev.testing.incremental.saint_kitts_nevis
      • SaintKittsNevis
      • main()
    • cowidev.testing.incremental.saint_lucia
      • SaintLucia
      • main()
    • cowidev.testing.incremental.saint_vincent_and_the_grenadines
      • SaintVincentAndTheGrenadines
      • main()
    • cowidev.testing.incremental.singapore
      • Singapore
      • main()
    • cowidev.testing.incremental.suriname
      • Suriname
      • main()
    • cowidev.testing.incremental.sweden
      • Sweden
      • main()
    • cowidev.testing.incremental.syria
      • Syria
      • main()
    • cowidev.testing.incremental.timor
      • TimorLeste
      • main()
    • cowidev.testing.incremental.togo
      • Togo
      • main()
    • cowidev.testing.incremental.tunisia
      • Tunisia
      • main()
    • cowidev.testing.incremental.ukraine
      • Ukraine
      • main()
    • cowidev.testing.incremental.vanuatu
      • Vanuatu
      • main()
    • cowidev.testing.incremental.vietnam
      • Vietnam
      • main()
  • cowidev.testing.utils
    • cowidev.testing.utils.orgs
      • cowidev.testing.utils.orgs._config_loader
    • cowidev.testing.utils.base
      • CountryTestBase
      • merge_with_current_data()
    • cowidev.testing.utils.gsheets
      • TestingGSheet
    • cowidev.testing.utils.incremental
      • _check_fields()
      • increment()
    • cowidev.testing.utils.utils
      • make_monotonic()
      • make_monotonic()
  • cowidev.testing.countries
• cowidev.utils
  • cowidev.utils.clean
    • cowidev.utils.clean.dataframes
      • clean_column_name()
      • clean_df_columns_multiindex()
    • cowidev.utils.clean.dates
      • _replace_date_fields()
      • _setlocale()
      • clean_date()
      • clean_date_series()
      • extract_clean_date()
      • from_tz_to_tz()
      • list_timezones()
      • localdate()
      • localdatenow()
      • week_to_date()
    • cowidev.utils.clean.numbers
      • NumericCleaner
      • _series_to_float()
      • _series_to_int64()
      • clean_count()
      • metrics_to_num_float()
      • metrics_to_num_int()
    • cowidev.utils.clean.strings
      • clean_string()
    • cowidev.utils.clean.urls
      • clean_urls()
      • clean_column_name()
      • clean_count()
      • clean_date()
      • clean_date_series()
      • clean_df_columns_multiindex()
      • clean_string()
      • clean_urls()
      • extract_clean_date()
  • cowidev.utils.gdrive
    • cowidev.utils.gdrive.credentials
    • cowidev.utils.gdrive.gdrive
      • _is_gdrive_config_valid()
      • download_file()
      • download_folder()
      • gdrive_init()
      • get_gdrive()
      • list_files()
    • cowidev.utils.gdrive.gsheets
      • GSheetApi
      • GSheetApi
      • download_file()
      • download_folder()
      • list_files()
  • cowidev.utils.params
    • cowidev.utils.params.config
      • Base4Config
      • BaseGetConfig
      • Config
      • ExecutionConfig
      • HospitalizationsConfig
      • HospitalizationsGenerateConfig
      • PipelineConfig
      • TestingConfig
      • TestingGetConfig
      • VaccinationsConfig
      • VaccinationsGetConfig
      • VaccinationsProcessConfig
    • cowidev.utils.params.secrets
      • GoogleSecrets
      • ScraperAPISecrets
      • Secrets
      • SlackSecrets
      • TestingSecrets
      • TwitterSecrets
      • VaccinationsSecrets
  • cowidev.utils.web
    • cowidev.utils.web.download
      • DESAdapter
      • download_file_from_url()
      • get_base_url()
      • read_csv_from_url()
      • read_xlsx_from_url()
    • cowidev.utils.web.scraping
      • get_driver()
      • get_headers()
      • get_response()
      • get_soup()
      • request_json()
      • request_text()
      • scroll_till_element()
      • sel_options()
      • set_download_settings()
    • cowidev.utils.web.utils
      • to_proxy_url()
      • url_request_broken()
      • get_base_url()
      • get_driver()
      • get_soup()
      • read_xlsx_from_url()
      • request_json()
  • cowidev.utils.annotations
    • AnnotatorInternal
      • AnnotatorInternal._add_annotations()
      • AnnotatorInternal.add_annotations()
      • AnnotatorInternal.from_yaml()
      • AnnotatorInternal.streams
  • cowidev.utils.exceptions
    • ConfigFileError
    • EnvironmentError
    • SecretsFileError
  • cowidev.utils.io
    • extract_zip()
  • cowidev.utils.log
    • get_logger()
    • normalize_country_name()
    • print_eoe()
    • system_details()
  • cowidev.utils.paths
    • CONFIG_DIR
    • CONFIG_FILE
    • SECRETS_FILE
    • _get_project_dir_from_env()
    • out_vax()
  • cowidev.utils.s3
    • S3
      • S3.check_for_default_profile()
      • S3.connect()
      • S3.download_from_s3()
      • S3.get_metadata()
      • S3.obj_from_s3()
      • S3.obj_to_s3()
      • S3.spaces_endpoint
      • S3.upload_to_s3()
    • UploadError
    • _check_s3_local_files()
    • _url_to_path_and_bucket()
    • _url_to_path_and_bucket_mult()
    • df_from_s3()
    • df_to_s3()
    • dict_from_s3()
    • dict_to_s3()
    • obj_from_s3()
    • obj_to_s3()
    • str_to_s3()
  • cowidev.utils.slackapi
    • SlackAPI
      • SlackAPI._load_client()
      • SlackAPI._send_msg()
      • SlackAPI.send_error()
      • SlackAPI.send_success()
      • SlackAPI.send_warning()
  • cowidev.utils.utils
    • check_known_columns()
    • dict_to_compact_json()
    • export_timestamp()
    • get_filename()
    • get_traceback()
    • make_monotonic()
    • make_monotonic_new()
    • pd_series_diff_values()
    • series_monotonic()
    • time_str_grapher()
    • xlsx2csv()
    • clean_count()
    • clean_date()
    • clean_date_series()
    • get_soup()
• cowidev.variants
  • cowidev.variants.__main__
    • run_step()
  • cowidev.variants._parser
    • _parse_args()
  • cowidev.variants.etl
    • VariantsETL
      • VariantsETL._parse_last_update_date
      • VariantsETL.extract()
      • VariantsETL.json_to_df()
      • VariantsETL.load()
      • VariantsETL.pipe_check_variants()
      • VariantsETL.pipe_correct_excess_percentage()
      • VariantsETL.pipe_cumsum()
      • VariantsETL.pipe_date()
      • VariantsETL.pipe_dtypes()
      • VariantsETL.pipe_filter_by_num_sequences()
      • VariantsETL.pipe_filter_locations()
      • VariantsETL.pipe_group_by_variants()
      • VariantsETL.pipe_location()
      • VariantsETL.pipe_omicron()
      • VariantsETL.pipe_out()
      • VariantsETL.pipe_per_capita()
      • VariantsETL.pipe_percent()
      • VariantsETL.pipe_rename_columns()
      • VariantsETL.pipe_variant_dominant()
      • VariantsETL.pipe_variant_non_who()
      • VariantsETL.pipe_variant_others()
      • VariantsETL.pipe_variant_totals()
      • VariantsETL.pipe_variants()
      • VariantsETL.run()
      • VariantsETL.transform()
      • VariantsETL.transform_seq()
      • VariantsETL.variants_mapping
      • VariantsETL.variants_who
    • run_etl()
  • cowidev.variants.grapher
    • filter_by_num_sequences()
    • run_db_updater()
    • run_explorerizer()
    • run_grapheriser()
    • variant_url_frienldy_name()
• cowidev.vax
  • cowidev.vax._static
    • cowidev.vax._static.data
    • cowidev.vax._static.queries
  • cowidev.vax.batch
    • cowidev.vax.batch.argentina
      • Argentina
      • main()
    • cowidev.vax.batch.australia
      • Australia
      • main()
    • cowidev.vax.batch.austria
      • Austria
      • main()
    • cowidev.vax.batch.belgium
      • Belgium
      • main()
    • cowidev.vax.batch.bolivia
      • Bolivia
      • main()
    • cowidev.vax.batch.canada
      • Canada
      • main()
    • cowidev.vax.batch.chile
      • Chile
      • main()
    • cowidev.vax.batch.czechia
      • Czechia
      • aggregate_by_date()
      • aggregate_by_date_vaccine()
      • base_pipeline()
      • breakdown_per_vaccine()
      • check_vaccine_names()
      • enrich_cumulated_sums()
      • enrich_location()
      • enrich_metadata()
      • enrich_source()
      • format_date()
      • infer_one_dose_vaccines()
      • main()
      • read()
      • remove_vaccines()
      • translate_vaccine_names()
    • cowidev.vax.batch.denmark
      • Denmark
      • _build_filepath()
      • _load_datafile()
      • main()
    • cowidev.vax.batch.ecdc
      • ECDC
      • main()
    • cowidev.vax.batch.ecuador
      • Ecuador
      • main()
    • cowidev.vax.batch.estonia
      • Estonia
      • main()
    • cowidev.vax.batch.france
      • France
      • main()
    • cowidev.vax.batch.germany
      • Germany
      • main()
    • cowidev.vax.batch.greece
      • Greece
      • main()
    • cowidev.vax.batch.hong_kong
      • HongKong
      • main()
    • cowidev.vax.batch.indonesia
      • Indonesia
      • main()
    • cowidev.vax.batch.ireland
      • Ireland
      • main()
    • cowidev.vax.batch.israel
      • Israel
      • main()
    • cowidev.vax.batch.italy
      • Italy
      • main()
    • cowidev.vax.batch.japan
      • Japan
      • main()
    • cowidev.vax.batch.jersey
      • Jersey
      • main()
    • cowidev.vax.batch.latvia
      • Latvia
      • main()
    • cowidev.vax.batch.lithuania
      • Lithuania
      • main()
    • cowidev.vax.batch.luxembourg
      • Luxembourg
      • main()
    • cowidev.vax.batch.malaysia
      • Malaysia
      • main()
    • cowidev.vax.batch.malta
      • Malta
      • main()
    • cowidev.vax.batch.netherlands
      • Netherlands
      • main()
    • cowidev.vax.batch.new_zealand
      • NewZealand
      • main()
    • cowidev.vax.batch.norway
      • Norway
      • main()
    • cowidev.vax.batch.peru
      • Peru
      • main()
    • cowidev.vax.batch.portugal
      • Portugal
      • add_boosters()
      • main()
    • cowidev.vax.batch.romania
      • Romania
      • main()
    • cowidev.vax.batch.saudi_arabia
      • SaudiArabia
      • main()
    • cowidev.vax.batch.singapore
      • Singapore
      • main()
    • cowidev.vax.batch.slovakia
      • Slovakia
      • main()
    • cowidev.vax.batch.slovenia
      • Slovenia
      • main()
    • cowidev.vax.batch.south_korea
      • SouthKorea
      • main()
    • cowidev.vax.batch.spc
      • SPC
      • main()
    • cowidev.vax.batch.sweden
      • Sweden
      • main()
    • cowidev.vax.batch.switzerland
      • Switzerland
      • _get_geo_region()
      • main()
    • cowidev.vax.batch.trinidad_and_tobago
      • TrinidadTobago
      • main()
    • cowidev.vax.batch.ukraine
      • Ukraine
      • main()
    • cowidev.vax.batch.united_kingdom
      • UnitedKingdom
      • main()
    • cowidev.vax.batch.united_states
      • UnitedStates
      • main()
    • cowidev.vax.batch.uruguay
      • Uruguay
      • main()
    • cowidev.vax.batch.zimbabwe
      • Zimbabwe
      • main()
  • cowidev.vax.cmd
    • cowidev.vax.cmd.twitter
      • _propose_data_country()
      • main_propose_data_twitter()
  • cowidev.vax.incremental
    • cowidev.vax.incremental.africacdc
      • AfricaCDC
      • main()
    • cowidev.vax.incremental.antigua_barbuda
      • AntiguaBarbuda
      • main()
    • cowidev.vax.incremental.aruba
      • add_totals()
      • enrich_date()
      • enrich_location()
      • enrich_vaccine()
      • main()
      • pipeline()
      • read()
    • cowidev.vax.incremental.azerbaijan
      • Azerbaijan
      • main()
    • cowidev.vax.incremental.bahrain
      • Bahrain
      • main()
    • cowidev.vax.incremental.bangladesh
      • Bangladesh
      • main()
    • cowidev.vax.incremental.barbados
      • Barbados
      • main()
    • cowidev.vax.incremental.brazil
      • Brazil
      • main()
    • cowidev.vax.incremental.bulgaria
      • Bulgaria
      • main()
    • cowidev.vax.incremental.china
      • China
      • main()
    • cowidev.vax.incremental.costa_rica
      • CostaRica
      • main()
    • cowidev.vax.incremental.croatia
      • enrich_location()
      • enrich_source()
      • enrich_vaccine()
      • main()
      • pipeline()
      • read()
    • cowidev.vax.incremental.cuba
      • Cuba
      • main()
    • cowidev.vax.incremental.curacao
      • Curacao
      • main()
    • cowidev.vax.incremental.cyprus
      • enrich_location()
      • enrich_vaccine()
      • main()
      • pipeline()
      • read()
    • cowidev.vax.incremental.dominican_republic
      • DominicanRepublic
      • _find_h3()
      • _find_potential_metric_elements()
      • _find_potential_metrics()
      • main()
    • cowidev.vax.incremental.el_salvador
      • ElSalvador
      • main()
    • cowidev.vax.incremental.faeroe_islands
      • FaeroeIslands
      • main()
    • cowidev.vax.incremental.fiji
      • Fiji
      • check_booster()
      • main()
    • cowidev.vax.incremental.finland
      • Finland
      • main()
    • cowidev.vax.incremental.gabon
      • Gabon
      • main()
    • cowidev.vax.incremental.georgia
      • Georgia
      • main()
    • cowidev.vax.incremental.greenland
      • Greenland
      • main()
    • cowidev.vax.incremental.guatemala
      • main()
    • cowidev.vax.incremental.guernsey
      • Guernsey
      • main()
    • cowidev.vax.incremental.hungary
      • Hungary
      • main()
    • cowidev.vax.incremental.iceland
      • Iceland
      • main()
    • cowidev.vax.incremental.india
      • India
      • main()
    • cowidev.vax.incremental.iran
      • Iran
      • main()
    • cowidev.vax.incremental.isle_of_man
      • IsleOfMan
      • main()
    • cowidev.vax.incremental.jamaica
      • Jamaica
      • main()
    • cowidev.vax.incremental.kazakhstan
      • Kazakhstan
      • main()
    • cowidev.vax.incremental.kosovo
      • Kosovo
      • main()
    • cowidev.vax.incremental.kyrgyzstan
      • Kyrgyzstan
      • main()
    • cowidev.vax.incremental.laos
      • Laos
      • main()
    • cowidev.vax.incremental.macao
      • Macao
      • main()
    • cowidev.vax.incremental.moldova
      • Moldova
      • main()
    • cowidev.vax.incremental.monaco
      • Monaco
      • main()
    • cowidev.vax.incremental.mongolia
      • _check_vaccine_names()
      • _get_vaccine_names()
      • add_totals()
      • enrich_location()
      • enrich_source()
      • main()
      • parse_data()
      • pipeline()
      • read()
    • cowidev.vax.incremental.montenegro
      • enrich_location()
      • enrich_source()
      • enrich_vaccine()
      • main()
      • parse_data()
      • pipeline()
      • read()
    • cowidev.vax.incremental.morocco
      • Morocco
      • main()
    • cowidev.vax.incremental.myanmar
      • Myanmar
      • main()
    • cowidev.vax.incremental.nepal
      • Nepal
      • main()
    • cowidev.vax.incremental.north_macedonia
      • connect_parse_data()
      • enrich_date()
      • enrich_location()
      • enrich_source()
      • enrich_vaccine()
      • main()
      • pipeline()
      • read()
    • cowidev.vax.incremental.northern_cyprus
      • enrich_location()
      • enrich_source()
      • enrich_vaccine()
      • main()
      • parse_data()
      • pipeline()
      • read()
    • cowidev.vax.incremental.paho
      • PAHO
      • main()
    • cowidev.vax.incremental.pakistan
      • Pakistan
      • main()
    • cowidev.vax.incremental.philippines
      • Philippines
      • main()
    • cowidev.vax.incremental.poland
      • Poland
      • main()
    • cowidev.vax.incremental.qatar
      • Qatar
      • main()
    • cowidev.vax.incremental.russia
      • Russia
      • enrich_location()
      • enrich_source()
      • enrich_vaccine()
      • main()
      • pipeline()
      • read()
    • cowidev.vax.incremental.saint_lucia
      • connect_parse_data()
      • enrich_location()
      • enrich_source()
      • enrich_vaccine()
      • main()
      • pipeline()
      • read()
    • cowidev.vax.incremental.serbia
      • Serbia
      • main()
    • cowidev.vax.incremental.south_africa
      • SouthAfrica
      • main()
    • cowidev.vax.incremental.spain
      • Spain
      • main()
    • cowidev.vax.incremental.sri_lanka
      • SriLanka
      • main()
    • cowidev.vax.incremental.suriname
      • enrich_location()
      • enrich_source()
      • enrich_vaccine()
      • main()
      • pipeline()
      • read()
    • cowidev.vax.incremental.taiwan
      • Taiwan
      • main()
    • cowidev.vax.incremental.thailand
      • Thailand
      • main()
    • cowidev.vax.incremental.turkey
      • enrich_location()
      • enrich_source()
      • enrich_vaccine()
      • main()
      • parse_data()
      • parse_date()
      • parse_metric()
      • pipeline()
      • read()
    • cowidev.vax.incremental.united_arab_emirates
      • UnitedArabEmirates
      • main()
    • cowidev.vax.incremental.vietnam
      • Vietnam
      • main()
    • cowidev.vax.incremental.who
      • WHO
      • main()
    • cowidev.vax.incremental.zambia
      • Zambia
      • main()
  • cowidev.vax.manual
    • cowidev.vax.manual.twitter
      • cowidev.vax.manual.twitter.base
      • cowidev.vax.manual.twitter.eswatini
      • cowidev.vax.manual.twitter.ethiopia
      • cowidev.vax.manual.twitter.gabon
      • cowidev.vax.manual.twitter.gibraltar
      • cowidev.vax.manual.twitter.guinea
      • cowidev.vax.manual.twitter.kenya
      • cowidev.vax.manual.twitter.malawi
      • cowidev.vax.manual.twitter.maldives
      • cowidev.vax.manual.twitter.nigeria
      • cowidev.vax.manual.twitter.panama
      • cowidev.vax.manual.twitter.paraguay
      • cowidev.vax.manual.twitter.uganda
      • cowidev.vax.manual.twitter.utils
      • cowidev.vax.manual.twitter.zimbabwe
  • cowidev.vax.us_states
    • cowidev.vax.us_states.__main__
      • run_step()
    • cowidev.vax.us_states._parser
      • _parse_args()
    • cowidev.vax.us_states.etl
      • USStatesETL
      • _smooth_state()
      • pipe_checks()
      • pipe_monotonic_by_state()
      • pipe_per_capita()
      • pipe_rename_cols()
      • pipe_select_columns()
      • pipe_smoothed()
      • pipe_usage()
      • run_etl()
    • cowidev.vax.us_states.grapher
      • run_db_updater()
      • run_explorerizer()
      • run_grapheriser()
      • run_etl()
      • run_grapheriser()
  • cowidev.vax.utils
    • cowidev.vax.utils.orgs
      • cowidev.vax.utils.orgs._config_loader
    • cowidev.vax.utils.base
      • CountryVaxBase
      • _build_population_age_group_df()
      • _check_last_update()
      • merge_with_current_data()
    • cowidev.vax.utils.checks
      • CountryChecker
      • country_df_sanity_checks()
      • validate_vaccines()
    • cowidev.vax.utils.extra_source
      • add_latest_from_acdc()
    • cowidev.vax.utils.files
      • export_metadata()
      • get_file_encoding()
      • load_data()
      • load_query()
    • cowidev.vax.utils.incremental
      • _build_df()
      • _check_fields()
      • _from_gh_to_scripts()
      • _increment()
      • enrich_data()
      • increment()
      • merge_with_current_data()
    • cowidev.vax.utils.utils
      • add_latest_who_values()
      • build_vaccine_timeline()
      • get_latest_file()
      • make_monotonic()
  • cowidev.vax.countries
  • cowidev.vax.icer
    • main()
• cowidev.xm
  • cowidev.xm.__main__
    • run_step()
  • cowidev.xm._parser
    • _parse_args()
  • cowidev.xm.etl
    • XMortalityETL
      • XMortalityETL.extract()
      • XMortalityETL.load()
      • XMortalityETL.pipeline()
      • XMortalityETL.run()
      • XMortalityETL.transform()
    • run_etl()
  • cowidev.xm.grapher
    • run_db_updater()
    • run_explorerizer()
    • run_grapheriser()
• cowidev.yougov
  • cowidev.yougov.__main__
    • YouGov
      • YouGov._get_source_url_country()
      • YouGov._read_country_from_web()
      • YouGov.export()
      • YouGov.list_countries
      • YouGov.output_csv_path
      • YouGov.output_csv_path_composite
      • YouGov.pipeline_csv()
      • YouGov.read()
      • YouGov.read_country()
      • YouGov.source_url_master
    • _aggregate()
    • _create_composite_cols()
    • _derive_cols()
    • _format_date()
    • _preprocess_cols()
    • _rename_columns()
    • _reorder_columns()
    • _round()
    • _standardize_entities()
    • _subset_and_rename_columns()
    • main()

cowidev.decoupling

cowidev.decoupling.adjust_x_and_y(df: DataFrame, start_date: str, end_date: str, hosp_variable: str, icu_variable: str) → DataFrame

cowidev.decoupling.main()

cowidev.decoupling.process_deu() → DataFrame

cowidev.decoupling.process_esp() → DataFrame

cowidev.decoupling.process_isr() → DataFrame

cowidev.decoupling.process_usa() → DataFrame

cowidev.decoupling.update_db()

cowidev.sweden

cowidev.sweden.download_data()

cowidev.sweden.generate_dataset()

cowidev.sweden.update_db()

cowidev.uk_nations

cowidev.uk_nations.add_decoupling_metrics(df: DataFrame) → DataFrame

cowidev.uk_nations.find_metric_peak(df: DataFrame, metric: str, period_start='2020-12-09', period_end='2021-02-23') → tuple

cowidev.uk_nations.generate_dataset()

cowidev.uk_nations.get_day_diff(dt)

cowidev.uk_nations.get_local() → DataFrame

cowidev.uk_nations.get_nation() → DataFrame

cowidev.uk_nations.get_nhs_region() → DataFrame

cowidev.uk_nations.get_uk() → DataFrame

cowidev.uk_nations.update_db()