├── .github └── workflows │ └── pytest.yml ├── CONTRIBUTING.md ├── LICENSE ├── README.md ├── VERSION ├── examples ├── bcda_synthetic_data_exploration.ipynb ├── statin_analysis_bigquery_example.ipynb └── statin_analysis_spark_example.ipynb ├── google-fhir-core ├── README.md ├── google │ └── fhir │ │ └── core │ │ ├── __init__.py │ │ ├── codes.py │ │ ├── extensions.py │ │ ├── extensions_test.py │ │ ├── fhir_errors.py │ │ ├── fhir_errors_test.py │ │ ├── fhir_path │ │ ├── FhirPathLexer.py │ │ ├── FhirPathParser.py │ │ ├── FhirPathVisitor.py │ │ ├── __init__.py │ │ ├── _ast.py │ │ ├── _ast_test.py │ │ ├── _bigquery_interpreter.py │ │ ├── _bigquery_sql_functions.py │ │ ├── _evaluation.py │ │ ├── _fhir_path_data_types.py │ │ ├── _fhir_path_data_types_test.py │ │ ├── _interpreter_test_base.py │ │ ├── _python_interpreter.py │ │ ├── _spark_interpreter.py │ │ ├── _spark_sql_functions.py │ │ ├── _sql_data_types.py │ │ ├── _sql_data_types_test.py │ │ ├── _structure_definitions.py │ │ ├── _utils.py │ │ ├── _utils_test.py │ │ ├── context.py │ │ ├── context_test.py │ │ ├── expressions.py │ │ ├── fhir_path_options.py │ │ ├── fhir_path_spark_test.py │ │ ├── fhir_path_test.py │ │ ├── fhir_path_test_base.py │ │ ├── fhir_path_validator.py │ │ ├── fhir_path_validator_test.py │ │ ├── python_compiled_expressions.py │ │ ├── quantity.py │ │ └── quantity_test.py │ │ ├── internal │ │ ├── __init__.py │ │ ├── _primitive_time_utils.py │ │ ├── json_format │ │ │ ├── __init__.py │ │ │ ├── _json_parser.py │ │ │ ├── _json_printer.py │ │ │ ├── json_format_test.py │ │ │ └── wrappers │ │ │ │ ├── README.md │ │ │ │ ├── __init__.py │ │ │ │ ├── _base64_binary.py │ │ │ │ ├── _date.py │ │ │ │ ├── _date_time.py │ │ │ │ ├── _decimal.py │ │ │ │ ├── _instant.py │ │ │ │ ├── _primitive_wrappers.py │ │ │ │ └── _time.py │ │ ├── primitive_handler.py │ │ └── resource_validation.py │ │ ├── proto │ │ ├── __init__.py │ │ ├── annotations.proto │ │ ├── fhirpath_replacement_list.proto │ │ └── validation.proto │ │ ├── references.py │ │ ├── testing │ │ ├── __init__.py │ │ ├── protobuf_compare.py │ │ └── testdata_utils.py │ │ └── utils │ │ ├── __init__.py │ │ ├── annotation_utils.py │ │ ├── annotation_utils_test.py │ │ ├── fhir_package.py │ │ ├── fhir_package_test_base.py │ │ ├── fhir_types.py │ │ ├── fhir_types_test.py │ │ ├── path_utils.py │ │ ├── path_utils_test.py │ │ ├── proto_utils.py │ │ ├── proto_utils_test.py │ │ ├── resource_utils.py │ │ ├── resource_utils_test.py │ │ ├── url_utils.py │ │ └── url_utils_test.py └── setup.py ├── google-fhir-r4 ├── README.md ├── google │ └── fhir │ │ └── r4 │ │ ├── __init__.py │ │ ├── data │ │ └── README.md │ │ ├── fhir_client │ │ ├── __init__.py │ │ ├── _fhir_client.py │ │ ├── _fhir_client_test.py │ │ ├── fhir_client.py │ │ └── fhir_client_test.py │ │ ├── fhir_path.py │ │ ├── fhir_path_test.py │ │ ├── json_format.py │ │ ├── primitive_handler.py │ │ ├── proto │ │ ├── __init__.py │ │ ├── core │ │ │ ├── __init__.py │ │ │ ├── codes.proto │ │ │ ├── datatypes.proto │ │ │ ├── extensions.proto │ │ │ ├── resources │ │ │ │ ├── __init__.py │ │ │ │ ├── account.proto │ │ │ │ ├── activity_definition.proto │ │ │ │ ├── adverse_event.proto │ │ │ │ ├── allergy_intolerance.proto │ │ │ │ ├── appointment.proto │ │ │ │ ├── appointment_response.proto │ │ │ │ ├── audit_event.proto │ │ │ │ ├── basic.proto │ │ │ │ ├── binary.proto │ │ │ │ ├── biologically_derived_product.proto │ │ │ │ ├── body_structure.proto │ │ │ │ ├── bundle_and_contained_resource.proto │ │ │ │ ├── capability_statement.proto │ │ │ │ ├── care_plan.proto │ │ │ │ ├── care_team.proto │ │ │ │ ├── catalog_entry.proto │ │ │ │ ├── charge_item.proto │ │ │ │ ├── charge_item_definition.proto │ │ │ │ ├── claim.proto │ │ │ │ ├── claim_response.proto │ │ │ │ ├── clinical_impression.proto │ │ │ │ ├── code_system.proto │ │ │ │ ├── communication.proto │ │ │ │ ├── communication_request.proto │ │ │ │ ├── compartment_definition.proto │ │ │ │ ├── composition.proto │ │ │ │ ├── concept_map.proto │ │ │ │ ├── condition.proto │ │ │ │ ├── consent.proto │ │ │ │ ├── contract.proto │ │ │ │ ├── coverage.proto │ │ │ │ ├── coverage_eligibility_request.proto │ │ │ │ ├── coverage_eligibility_response.proto │ │ │ │ ├── detected_issue.proto │ │ │ │ ├── device.proto │ │ │ │ ├── device_definition.proto │ │ │ │ ├── device_metric.proto │ │ │ │ ├── device_request.proto │ │ │ │ ├── device_use_statement.proto │ │ │ │ ├── diagnostic_report.proto │ │ │ │ ├── document_manifest.proto │ │ │ │ ├── document_reference.proto │ │ │ │ ├── domain_resource.proto │ │ │ │ ├── effect_evidence_synthesis.proto │ │ │ │ ├── encounter.proto │ │ │ │ ├── endpoint.proto │ │ │ │ ├── enrollment_request.proto │ │ │ │ ├── enrollment_response.proto │ │ │ │ ├── episode_of_care.proto │ │ │ │ ├── event_definition.proto │ │ │ │ ├── evidence.proto │ │ │ │ ├── evidence_variable.proto │ │ │ │ ├── example_scenario.proto │ │ │ │ ├── explanation_of_benefit.proto │ │ │ │ ├── family_member_history.proto │ │ │ │ ├── flag.proto │ │ │ │ ├── goal.proto │ │ │ │ ├── graph_definition.proto │ │ │ │ ├── group.proto │ │ │ │ ├── guidance_response.proto │ │ │ │ ├── healthcare_service.proto │ │ │ │ ├── imaging_study.proto │ │ │ │ ├── immunization.proto │ │ │ │ ├── immunization_evaluation.proto │ │ │ │ ├── immunization_recommendation.proto │ │ │ │ ├── implementation_guide.proto │ │ │ │ ├── insurance_plan.proto │ │ │ │ ├── invoice.proto │ │ │ │ ├── library.proto │ │ │ │ ├── linkage.proto │ │ │ │ ├── list.proto │ │ │ │ ├── location.proto │ │ │ │ ├── measure.proto │ │ │ │ ├── measure_report.proto │ │ │ │ ├── media.proto │ │ │ │ ├── medication.proto │ │ │ │ ├── medication_administration.proto │ │ │ │ ├── medication_dispense.proto │ │ │ │ ├── medication_knowledge.proto │ │ │ │ ├── medication_request.proto │ │ │ │ ├── medication_statement.proto │ │ │ │ ├── medicinal_product.proto │ │ │ │ ├── medicinal_product_authorization.proto │ │ │ │ ├── medicinal_product_contraindication.proto │ │ │ │ ├── medicinal_product_indication.proto │ │ │ │ ├── medicinal_product_ingredient.proto │ │ │ │ ├── medicinal_product_interaction.proto │ │ │ │ ├── medicinal_product_manufactured.proto │ │ │ │ ├── medicinal_product_packaged.proto │ │ │ │ ├── medicinal_product_pharmaceutical.proto │ │ │ │ ├── medicinal_product_undesirable_effect.proto │ │ │ │ ├── message_definition.proto │ │ │ │ ├── message_header.proto │ │ │ │ ├── metadata_resource.proto │ │ │ │ ├── molecular_sequence.proto │ │ │ │ ├── naming_system.proto │ │ │ │ ├── nutrition_order.proto │ │ │ │ ├── observation.proto │ │ │ │ ├── observation_definition.proto │ │ │ │ ├── operation_definition.proto │ │ │ │ ├── operation_outcome.proto │ │ │ │ ├── organization.proto │ │ │ │ ├── organization_affiliation.proto │ │ │ │ ├── parameters.proto │ │ │ │ ├── patient.proto │ │ │ │ ├── payment_notice.proto │ │ │ │ ├── payment_reconciliation.proto │ │ │ │ ├── person.proto │ │ │ │ ├── plan_definition.proto │ │ │ │ ├── practitioner.proto │ │ │ │ ├── practitioner_role.proto │ │ │ │ ├── procedure.proto │ │ │ │ ├── provenance.proto │ │ │ │ ├── questionnaire.proto │ │ │ │ ├── questionnaire_response.proto │ │ │ │ ├── related_person.proto │ │ │ │ ├── request_group.proto │ │ │ │ ├── research_definition.proto │ │ │ │ ├── research_element_definition.proto │ │ │ │ ├── research_study.proto │ │ │ │ ├── research_subject.proto │ │ │ │ ├── resource.proto │ │ │ │ ├── risk_assessment.proto │ │ │ │ ├── risk_evidence_synthesis.proto │ │ │ │ ├── schedule.proto │ │ │ │ ├── search_parameter.proto │ │ │ │ ├── service_request.proto │ │ │ │ ├── slot.proto │ │ │ │ ├── specimen.proto │ │ │ │ ├── specimen_definition.proto │ │ │ │ ├── structure_definition.proto │ │ │ │ ├── structure_map.proto │ │ │ │ ├── subscription.proto │ │ │ │ ├── substance.proto │ │ │ │ ├── substance_nucleic_acid.proto │ │ │ │ ├── substance_polymer.proto │ │ │ │ ├── substance_protein.proto │ │ │ │ ├── substance_reference_information.proto │ │ │ │ ├── substance_source_material.proto │ │ │ │ ├── substance_specification.proto │ │ │ │ ├── supply_delivery.proto │ │ │ │ ├── supply_request.proto │ │ │ │ ├── task.proto │ │ │ │ ├── terminology_capabilities.proto │ │ │ │ ├── test_report.proto │ │ │ │ ├── test_script.proto │ │ │ │ ├── value_set.proto │ │ │ │ ├── verification_result.proto │ │ │ │ └── vision_prescription.proto │ │ │ └── valuesets.proto │ │ ├── fhirproto.proto │ │ ├── fhirproto_extensions.proto │ │ ├── google_extensions.proto │ │ ├── ml_extensions.proto │ │ ├── primitive_test_suite.proto │ │ ├── uscore.proto │ │ └── uscore_codes.proto │ │ ├── r4_package.py │ │ ├── r4_package_test.py │ │ ├── references_test.py │ │ ├── resource_validation.py │ │ └── terminology │ │ ├── __init__.py │ │ ├── local_value_set_resolver.py │ │ ├── local_value_set_resolver_test.py │ │ ├── terminology_service_client.py │ │ ├── terminology_service_client_test.py │ │ ├── value_set_tables.py │ │ ├── value_set_tables_test.py │ │ ├── value_sets.py │ │ └── value_sets_test.py └── setup.py ├── google-fhir-views ├── README.md ├── google │ └── fhir │ │ └── views │ │ ├── __init__.py │ │ ├── _view_config.py │ │ ├── _view_config_test.py │ │ ├── _views_test_base.py │ │ ├── bigquery_runner.py │ │ ├── bigquery_runner_test.py │ │ ├── bigquery_value_set_manager.py │ │ ├── bigquery_value_set_manager_test.py │ │ ├── column_expression_builder.py │ │ ├── column_expression_builder_test.py │ │ ├── fhir_search_runner.py │ │ ├── fhir_search_runner_test.py │ │ ├── r4.py │ │ ├── r4_test.py │ │ ├── runner_utils.py │ │ ├── runner_utils_test.py │ │ ├── spark_runner.py │ │ ├── spark_runner_test.py │ │ ├── spark_value_set_manager.py │ │ ├── spark_value_set_manager_test.py │ │ └── views.py ├── setup.py └── tab_suggest_example.png ├── install_all.sh ├── run_tests.sh └── upload_to_pypi.sh /.github/workflows/pytest.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/google/fhir-py/HEAD/.github/workflows/pytest.yml 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