767 lines
27 KiB
Plaintext
767 lines
27 KiB
Plaintext
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/*********************************************************************************
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# Copyright 2018-08 Observational Health Data Sciences and Informatics
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#
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#
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# Licensed under the Apache License, Version 2.0 (the "License");
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# you may not use this file except in compliance with the License.
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# You may obtain a copy of the License at
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#
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# http://www.apache.org/licenses/LICENSE-2.0
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#
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# Unless required by applicable law or agreed to in writing, software
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# distributed under the License is distributed on an "AS IS" BASIS,
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# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
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# See the License for the specific language governing permissions and
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# limitations under the License.
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********************************************************************************/
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/************************
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####### # # ####### ###### ##### ###### # # ##### ###
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# # ## ## # # # # # # # # ## ## # # # # # #
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# # # # # # # # # # # # # # # # # # # # # #
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# # # # # # # ###### # # # # # # # # ###### # #
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# # # # # # # # # # # # # # # # ### # #
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# # # # # # # # # # # # # # # # # ### # #
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####### # # ####### # ##### ###### # # ## ##### ### ###
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redshift script to create OMOP common data model version 6.0
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last revised: 27-Aug-2018
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Authors: Patrick Ryan, Christian Reich, Clair Blacketer
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*************************/
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/************************
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Standardized vocabulary
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************************/
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--HINT DISTRIBUTE ON RANDOM
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CREATE TABLE concept (concept_id INTEGER NOT NULL ,
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concept_name VARCHAR(255) NOT NULL ,
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domain_id VARCHAR(20) NOT NULL ,
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vocabulary_id VARCHAR(20) NOT NULL ,
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concept_class_id VARCHAR(20) NOT NULL ,
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standard_concept VARCHAR(1) NULL ,
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concept_code VARCHAR(50) NOT NULL ,
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valid_start_date DATE NOT NULL ,
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valid_end_date DATE NOT NULL ,
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invalid_reason VARCHAR(1) NULL
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)
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DISTSTYLE ALL;
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--HINT DISTRIBUTE ON RANDOM
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CREATE TABLE vocabulary (vocabulary_id VARCHAR(20) NOT NULL,
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vocabulary_name VARCHAR(255) NOT NULL,
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vocabulary_reference VARCHAR(255) NOT NULL,
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vocabulary_version VARCHAR(255) NOT NULL,
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vocabulary_concept_id INTEGER NOT NULL
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)
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DISTSTYLE ALL;
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--HINT DISTRIBUTE ON RANDOM
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CREATE TABLE domain (domain_id VARCHAR(20) NOT NULL,
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domain_name VARCHAR(255) NOT NULL,
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domain_concept_id INTEGER NOT NULL
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)
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DISTSTYLE ALL;
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--HINT DISTRIBUTE ON RANDOM
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CREATE TABLE concept_class (concept_class_id VARCHAR(20) NOT NULL,
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concept_class_name VARCHAR(255) NOT NULL,
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concept_class_concept_id INTEGER NOT NULL
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)
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DISTSTYLE ALL;
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--HINT DISTRIBUTE ON RANDOM
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CREATE TABLE concept_relationship (concept_id_1 INTEGER NOT NULL,
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concept_id_2 INTEGER NOT NULL,
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relationship_id VARCHAR(20) NOT NULL,
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valid_start_date DATE NOT NULL,
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valid_end_date DATE NOT NULL,
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invalid_reason VARCHAR(1) NULL
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)
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DISTSTYLE ALL;
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--HINT DISTRIBUTE ON RANDOM
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CREATE TABLE relationship (relationship_id VARCHAR(20) NOT NULL,
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relationship_name VARCHAR(255) NOT NULL,
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is_hierarchical VARCHAR(1) NOT NULL,
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defines_ancestry VARCHAR(1) NOT NULL,
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reverse_relationship_id VARCHAR(20) NOT NULL,
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relationship_concept_id INTEGER NOT NULL
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)
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DISTSTYLE ALL;
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--HINT DISTRIBUTE ON RANDOM
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CREATE TABLE concept_synonym (concept_id INTEGER NOT NULL,
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concept_synonym_name VARCHAR(1000) NOT NULL,
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language_concept_id INTEGER NOT NULL
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)
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DISTSTYLE ALL;
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--HINT DISTRIBUTE ON RANDOM
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CREATE TABLE concept_ancestor (ancestor_concept_id INTEGER NOT NULL,
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descendant_concept_id INTEGER NOT NULL,
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min_levels_of_separation INTEGER NOT NULL,
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max_levels_of_separation INTEGER NOT NULL
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)
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DISTSTYLE ALL;
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--HINT DISTRIBUTE ON RANDOM
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CREATE TABLE source_to_concept_map (source_code VARCHAR(50) NOT NULL,
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source_concept_id INTEGER NOT NULL,
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source_vocabulary_id VARCHAR(20) NOT NULL,
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source_code_description VARCHAR(255) NULL,
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target_concept_id INTEGER NOT NULL,
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target_vocabulary_id VARCHAR(20) NOT NULL,
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valid_start_date DATE NOT NULL,
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valid_end_date DATE NOT NULL,
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invalid_reason VARCHAR(1) NULL
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)
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DISTSTYLE ALL;
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--HINT DISTRIBUTE ON RANDOM
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CREATE TABLE drug_strength (drug_concept_id INTEGER NOT NULL,
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ingredient_concept_id INTEGER NOT NULL,
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amount_value FLOAT NULL,
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amount_unit_concept_id INTEGER NULL,
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numerator_value FLOAT NULL,
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numerator_unit_concept_id INTEGER NULL,
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denominator_value FLOAT NULL,
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denominator_unit_concept_id INTEGER NULL,
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box_size INTEGER NULL,
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valid_start_date DATE NOT NULL,
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valid_end_date DATE NOT NULL,
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invalid_reason VARCHAR(1) NULL
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)
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DISTSTYLE ALL;
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--HINT DISTRIBUTE ON RANDOM
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CREATE TABLE cohort_definition (cohort_definition_id INTEGER NOT NULL,
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cohort_definition_name VARCHAR(255) NOT NULL,
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cohort_definition_description VARCHAR(MAX) NULL,
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definition_type_concept_id INTEGER NOT NULL,
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cohort_definition_syntax VARCHAR(MAX) NULL,
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subject_concept_id INTEGER NOT NULL,
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cohort_initiation_date DATE NULL
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)
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DISTSTYLE ALL;
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--HINT DISTRIBUTE ON RANDOM
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CREATE TABLE attribute_definition (attribute_definition_id INTEGER NOT NULL,
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attribute_name VARCHAR(255) NOT NULL,
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attribute_description VARCHAR(MAX) NULL,
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attribute_type_concept_id INTEGER NOT NULL,
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attribute_syntax VARCHAR(MAX) NULL
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)
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DISTSTYLE ALL;
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/**************************
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Standardized meta-data
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***************************/
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--HINT DISTRIBUTE ON RANDOM
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CREATE TABLE cdm_source
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(cdm_source_name VARCHAR(255) NOT NULL ,
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cdm_source_abbreviation VARCHAR(25) NULL ,
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cdm_holder VARCHAR(255) NULL ,
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source_description VARCHAR(MAX) NULL ,
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source_documentation_reference VARCHAR(255) NULL ,
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cdm_etl_reference VARCHAR(255) NULL ,
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source_release_date DATE NULL ,
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cdm_release_date DATE NULL ,
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cdm_version VARCHAR(10) NULL ,
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vocabulary_version VARCHAR(20) NULL
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)
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DISTSTYLE ALL;
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--HINT DISTRIBUTE ON RANDOM
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CREATE TABLE metadata
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(metadata_concept_id INTEGER NOT NULL ,
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metadata_type_concept_id INTEGER NOT NULL ,
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name VARCHAR(250) NOT NULL ,
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value_as_string VARCHAR(MAX) NULL ,
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value_as_concept_id INTEGER NULL ,
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metadata_date DATE NULL ,
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metadata_datetime TIMESTAMP NULL
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)
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DISTSTYLE ALL;
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INSERT INTO metadata (name, value_as_string) --Added cdm version record
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VALUES ('CDM Version', '6.0')
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;
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/************************
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Standardized clinical data
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************************/
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--HINT DISTRIBUTE_ON_KEY(person_id)
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CREATE TABLE person
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(person_id BIGINT NOT NULL , --BIGINTs added
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gender_concept_id INTEGER NOT NULL ,
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year_of_birth INTEGER NOT NULL ,
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month_of_birth INTEGER NULL,
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day_of_birth INTEGER NULL,
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birth_datetime TIMESTAMP NULL,
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race_concept_id INTEGER NOT NULL,
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ethnicity_concept_id INTEGER NOT NULL,
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location_id INTEGER NULL,
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provider_id INTEGER NULL,
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care_site_id INTEGER NULL,
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person_source_value VARCHAR(50) NULL,
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gender_source_value VARCHAR(50) NULL,
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gender_source_concept_id INTEGER NULL,
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race_source_value VARCHAR(50) NULL,
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race_source_concept_id INTEGER NULL,
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ethnicity_source_value VARCHAR(50) NULL,
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ethnicity_source_concept_id INTEGER NULL
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)
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DISTKEY(person_id);
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--HINT DISTRIBUTE_ON_KEY(person_id)
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CREATE TABLE observation_period
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(observation_period_id BIGINT NOT NULL ,
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person_id BIGINT NOT NULL ,
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observation_period_start_date DATE NOT NULL ,
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observation_period_end_date DATE NOT NULL ,
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period_type_concept_id INTEGER NOT NULL
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)
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DISTKEY(person_id);
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--HINT DISTRIBUTE_ON_KEY(person_id)
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CREATE TABLE specimen
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(specimen_id BIGINT NOT NULL ,
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person_id BIGINT NOT NULL ,
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specimen_concept_id INTEGER NOT NULL ,
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specimen_type_concept_id INTEGER NOT NULL ,
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specimen_date DATE NULL ,
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specimen_datetime TIMESTAMP NOT NULL ,
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quantity FLOAT NULL ,
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unit_concept_id INTEGER NULL ,
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anatomic_site_concept_id INTEGER NULL ,
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disease_status_concept_id INTEGER NULL ,
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specimen_source_id VARCHAR(50) NULL ,
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specimen_source_value VARCHAR(50) NULL ,
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unit_source_value VARCHAR(50) NULL ,
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anatomic_site_source_value VARCHAR(50) NULL ,
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disease_status_source_value VARCHAR(50) NULL
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)
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DISTKEY(person_id);
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--HINT DISTRIBUTE_ON_KEY(person_id)
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CREATE TABLE death
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(person_id BIGINT NOT NULL ,
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death_date DATE NULL ,
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death_datetime TIMESTAMP NOT NULL ,
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death_type_concept_id INTEGER NOT NULL ,
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cause_concept_id INTEGER NULL ,
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cause_source_value VARCHAR(50) NULL,
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cause_source_concept_id INTEGER NULL
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)
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DISTKEY(person_id);
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--HINT DISTRIBUTE_ON_KEY(person_id)
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CREATE TABLE visit_occurrence
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(visit_occurrence_id BIGINT NOT NULL ,
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person_id BIGINT NOT NULL ,
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visit_concept_id INTEGER NOT NULL ,
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visit_start_date DATE NULL ,
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visit_start_datetime TIMESTAMP NOT NULL ,
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visit_end_date DATE NULL ,
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visit_end_datetime TIMESTAMP NOT NULL ,
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visit_type_concept_id INTEGER NOT NULL ,
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provider_id INTEGER NULL,
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care_site_id INTEGER NULL,
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visit_source_value VARCHAR(50) NULL,
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visit_source_concept_id INTEGER NULL ,
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admitted_from_concept_id INTEGER NULL , /*Changed from admitting_source_* */
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admitted_from_source_value VARCHAR(50) NULL ,
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discharge_to_source_value VARCHAR(50) NULL ,
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discharge_to_concept_id INTEGER NULL ,
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preceding_visit_occurrence_id INTEGER NULL
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)
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DISTKEY(person_id);
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--HINT DISTRIBUTE_ON_KEY(person_id)
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CREATE TABLE visit_detail
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(visit_detail_id BIGINT NOT NULL ,
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person_id BIGINT NOT NULL ,
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visit_detail_concept_id INTEGER NOT NULL ,
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visit_detail_start_date DATE NULL ,
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visit_detail_start_datetime TIMESTAMP NOT NULL ,
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visit_detail_end_date DATE NULL ,
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visit_detail_end_datetime TIMESTAMP NOT NULL ,
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visit_detail_type_concept_id INTEGER NOT NULL ,
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provider_id INTEGER NULL ,
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care_site_id INTEGER NULL ,
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discharge_to_concept_id INTEGER NULL ,
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admitted_from_concept_id INTEGER NULL , /*Changed from admitting_source_* */
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admitted_from_source_value VARCHAR(50) NULL ,
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visit_detail_source_value VARCHAR(50) NULL ,
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visit_detail_source_concept_id INTEGER NULL ,
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discharge_to_source_value VARCHAR(50) NULL ,
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preceding_visit_detail_id BIGINT NULL ,
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visit_detail_parent_id BIGINT NULL ,
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visit_occurrence_id BIGINT NOT NULL
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)
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DISTKEY(person_id);
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--HINT DISTRIBUTE_ON_KEY(person_id)
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CREATE TABLE procedure_occurrence
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(procedure_occurrence_id BIGINT NOT NULL ,
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person_id BIGINT NOT NULL ,
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procedure_concept_id INTEGER NOT NULL ,
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procedure_date DATE NULL ,
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procedure_datetime TIMESTAMP NOT NULL ,
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procedure_type_concept_id INTEGER NOT NULL ,
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modifier_concept_id INTEGER NULL ,
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quantity INTEGER NULL ,
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provider_id INTEGER NULL ,
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visit_occurrence_id INTEGER NULL ,
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visit_detail_id INTEGER NULL ,
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procedure_source_value VARCHAR(50) NULL ,
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procedure_source_concept_id INTEGER NULL ,
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modifier_source_value VARCHAR(50) NULL ,
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)
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DISTKEY(person_id);
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--HINT DISTRIBUTE_ON_KEY(person_id)
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CREATE TABLE drug_exposure
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(drug_exposure_id BIGINT NOT NULL ,
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person_id BIGINT NOT NULL ,
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drug_concept_id INTEGER NOT NULL ,
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drug_exposure_start_date DATE NULL ,
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drug_exposure_start_datetime TIMESTAMP NOT NULL ,
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drug_exposure_end_date DATE NULL ,
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drug_exposure_end_datetime TIMESTAMP NOT NULL ,
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verbatim_end_date DATE NULL ,
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drug_type_concept_id INTEGER NOT NULL ,
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stop_reason VARCHAR(20) NULL ,
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refills INTEGER NULL ,
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quantity FLOAT NULL ,
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days_supply INTEGER NULL ,
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sig VARCHAR(MAX) NULL ,
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route_concept_id INTEGER NULL ,
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lot_number VARCHAR(50) NULL ,
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provider_id INTEGER NULL ,
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visit_occurrence_id INTEGER NULL ,
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|
|
visit_detail_id INTEGER NULL ,
|
||
|
|
drug_source_value VARCHAR(50) NULL ,
|
||
|
|
drug_source_concept_id INTEGER NULL ,
|
||
|
|
route_source_value VARCHAR(50) NULL ,
|
||
|
|
dose_unit_source_value VARCHAR(50) NULL
|
||
|
|
)
|
||
|
|
DISTKEY(person_id);
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE_ON_KEY(person_id)
|
||
|
|
CREATE TABLE device_exposure
|
||
|
|
(device_exposure_id BIGINT NOT NULL ,
|
||
|
|
person_id BIGINT NOT NULL ,
|
||
|
|
device_concept_id INTEGER NOT NULL ,
|
||
|
|
device_exposure_start_date DATE NULL ,
|
||
|
|
device_exposure_start_datetime TIMESTAMP NOT NULL ,
|
||
|
|
device_exposure_end_date DATE NULL ,
|
||
|
|
device_exposure_end_datetime TIMESTAMP NULL ,
|
||
|
|
device_type_concept_id INTEGER NOT NULL ,
|
||
|
|
unique_device_id VARCHAR(50) NULL ,
|
||
|
|
quantity INTEGER NULL ,
|
||
|
|
provider_id INTEGER NULL ,
|
||
|
|
visit_occurrence_id INTEGER NULL ,
|
||
|
|
visit_detail_id INTEGER NULL ,
|
||
|
|
device_source_value VARCHAR(100) NULL ,
|
||
|
|
device_source_concept_id INTEGER NULL
|
||
|
|
)
|
||
|
|
DISTKEY(person_id);
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE_ON_KEY(person_id)
|
||
|
|
CREATE TABLE condition_occurrence
|
||
|
|
(condition_occurrence_id BIGINT NOT NULL ,
|
||
|
|
person_id BIGINT NOT NULL ,
|
||
|
|
condition_concept_id INTEGER NOT NULL ,
|
||
|
|
condition_start_date DATE NULL ,
|
||
|
|
condition_start_datetime TIMESTAMP NOT NULL ,
|
||
|
|
condition_end_date DATE NULL ,
|
||
|
|
condition_end_datetime TIMESTAMP NULL ,
|
||
|
|
condition_type_concept_id INTEGER NOT NULL ,
|
||
|
|
condition_status_concept_id INTEGER NULL ,
|
||
|
|
stop_reason VARCHAR(20) NULL ,
|
||
|
|
provider_id INTEGER NULL ,
|
||
|
|
visit_occurrence_id INTEGER NULL ,
|
||
|
|
visit_detail_id INTEGER NULL ,
|
||
|
|
condition_source_value VARCHAR(50) NULL ,
|
||
|
|
condition_source_concept_id INTEGER NULL ,
|
||
|
|
condition_status_source_value VARCHAR(50) NULL
|
||
|
|
)
|
||
|
|
DISTKEY(person_id);
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE_ON_KEY(person_id)
|
||
|
|
CREATE TABLE measurement
|
||
|
|
(measurement_id BIGINT NOT NULL ,
|
||
|
|
person_id BIGINT NOT NULL ,
|
||
|
|
measurement_concept_id INTEGER NOT NULL ,
|
||
|
|
measurement_date DATE NULL ,
|
||
|
|
measurement_datetime TIMESTAMP NOT NULL ,
|
||
|
|
measurement_time VARCHAR(10) NULL,
|
||
|
|
measurement_type_concept_id INTEGER NOT NULL ,
|
||
|
|
operator_concept_id INTEGER NULL ,
|
||
|
|
value_as_number FLOAT NULL ,
|
||
|
|
value_as_concept_id INTEGER NULL ,
|
||
|
|
unit_concept_id INTEGER NULL ,
|
||
|
|
range_low FLOAT NULL ,
|
||
|
|
range_high FLOAT NULL ,
|
||
|
|
provider_id INTEGER NULL ,
|
||
|
|
visit_occurrence_id INTEGER NULL ,
|
||
|
|
visit_detail_id INTEGER NULL ,
|
||
|
|
measurement_source_value VARCHAR(50) NULL ,
|
||
|
|
measurement_source_concept_id INTEGER NULL ,
|
||
|
|
unit_source_value VARCHAR(50) NULL ,
|
||
|
|
value_source_value VARCHAR(50) NULL
|
||
|
|
)
|
||
|
|
DISTKEY(person_id);
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE_ON_KEY(person_id)
|
||
|
|
CREATE TABLE note
|
||
|
|
(note_id BIGINT NOT NULL ,
|
||
|
|
person_id BIGINT NOT NULL ,
|
||
|
|
note_event_id BIGINT NULL , --This and the field below added
|
||
|
|
note_domain_id VARCHAR(20) NULL , --This field may be removed in favor of the one below
|
||
|
|
--note_event_table_concept_id INTEGER NULL , --This may be added based on 9/4 meeting
|
||
|
|
note_date DATE NULL ,
|
||
|
|
note_datetime TIMESTAMP NOT NULL ,
|
||
|
|
note_type_concept_id INTEGER NOT NULL ,
|
||
|
|
note_class_concept_id INTEGER NOT NULL ,
|
||
|
|
note_title VARCHAR(250) NULL ,
|
||
|
|
note_text VARCHAR(MAX) NULL ,
|
||
|
|
encoding_concept_id INTEGER NOT NULL ,
|
||
|
|
language_concept_id INTEGER NOT NULL ,
|
||
|
|
provider_id INTEGER NULL ,
|
||
|
|
visit_occurrence_id INTEGER NULL ,
|
||
|
|
visit_detail_id INTEGER NULL ,
|
||
|
|
note_source_value VARCHAR(50) NULL
|
||
|
|
)
|
||
|
|
DISTKEY(person_id);
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE ON RANDOM
|
||
|
|
CREATE TABLE note_nlp
|
||
|
|
(note_nlp_id BIGINT NOT NULL ,
|
||
|
|
note_id BIGINT NOT NULL ,
|
||
|
|
section_concept_id INTEGER NULL ,
|
||
|
|
snippet VARCHAR(250) NULL ,
|
||
|
|
"offset" VARCHAR(250) NULL ,
|
||
|
|
lexical_variant VARCHAR(250) NOT NULL ,
|
||
|
|
note_nlp_concept_id INTEGER NULL ,
|
||
|
|
nlp_system VARCHAR(250) NULL ,
|
||
|
|
nlp_date DATE NOT NULL ,
|
||
|
|
nlp_datetime TIMESTAMP NULL ,
|
||
|
|
term_exists VARCHAR(1) NULL ,
|
||
|
|
term_temporal VARCHAR(50) NULL ,
|
||
|
|
term_modifiers VARCHAR(2000) NULL ,
|
||
|
|
note_nlp_source_concept_id INTEGER NULL
|
||
|
|
)
|
||
|
|
DISTSTYLE ALL;
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE_ON_KEY(person_id)
|
||
|
|
CREATE TABLE observation
|
||
|
|
(observation_id BIGINT NOT NULL ,
|
||
|
|
person_id BIGINT NOT NULL ,
|
||
|
|
observation_concept_id INTEGER NOT NULL ,
|
||
|
|
observation_date DATE NULL ,
|
||
|
|
observation_datetime TIMESTAMP NOT NULL ,
|
||
|
|
observation_type_concept_id INTEGER NOT NULL ,
|
||
|
|
value_as_number FLOAT NULL ,
|
||
|
|
value_as_string VARCHAR(60) NULL ,
|
||
|
|
value_as_concept_id INTEGER NULL ,
|
||
|
|
qualifier_concept_id INTEGER NULL ,
|
||
|
|
unit_concept_id INTEGER NULL ,
|
||
|
|
provider_id INTEGER NULL ,
|
||
|
|
visit_occurrence_id BIGINT NULL ,
|
||
|
|
visit_detail_id BIGINT NULL ,
|
||
|
|
observation_source_value VARCHAR(50) NULL ,
|
||
|
|
observation_source_concept_id INTEGER NULL ,
|
||
|
|
unit_source_value VARCHAR(50) NULL ,
|
||
|
|
qualifier_source_value VARCHAR(50) NULL ,
|
||
|
|
observation_event_id BIGINT NULL , /* This will link back to the event table (SURVEY) on SURVEY_OCCURRENCE_ID, changed name to comply with COST and NOTE*/
|
||
|
|
observation_event_domain_id VARCHAR(20) NULL ,
|
||
|
|
--obs_event_table_concept_id INTEGER NULL , /* Changed name to comply with COST and NOTE. Had to use 'obs' for oracle restriction, may be added on 9/4*/
|
||
|
|
value_as_datetime TIMESTAMP NULL
|
||
|
|
)
|
||
|
|
DISTKEY(person_id);
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE ON KEY(person_id)
|
||
|
|
CREATE TABLE survey_conduct --Table added
|
||
|
|
(survey_conduct_id BIGINT NOT NULL ,
|
||
|
|
person_id BIGINT NOT NULL ,
|
||
|
|
survey_concept_id INTEGER NOT NULL ,
|
||
|
|
survey_start_date DATE NULL ,
|
||
|
|
survey_start_datetime TIMESTAMP NULL ,
|
||
|
|
survey_end_date DATE NULL ,
|
||
|
|
survey_end_datetime TIMESTAMP NOT NULL ,
|
||
|
|
provider_id BIGINT NULL ,
|
||
|
|
assisted_concept_id INTEGER NULL ,
|
||
|
|
respondent_type_concept_id INTEGER NULL ,
|
||
|
|
timing_concept_id INTEGER NULL ,
|
||
|
|
collection_method_concept_id INTEGER NULL ,
|
||
|
|
assisted_source_value VARCHAR(50) NULL ,
|
||
|
|
respondent_type_source_value VARCHAR(100) NULL ,
|
||
|
|
timing_source_value VARCHAR(100) NULL ,
|
||
|
|
collection_method_source_value VARCHAR(100) NULL ,
|
||
|
|
survey_source_value VARCHAR(100) NULL ,
|
||
|
|
survey_source_concept_id INTEGER NULL ,
|
||
|
|
survey_source_identifier VARCHAR(100) NULL ,
|
||
|
|
validated_survey_concept_id INTEGER NULL ,
|
||
|
|
validated_survey_source_value VARCHAR(100) NULL ,
|
||
|
|
survey_version_number VARCHAR(20) NULL ,
|
||
|
|
visit_occurrence_id BIGINT NULL ,
|
||
|
|
visit_detail_id BIGINT NULL ,
|
||
|
|
response_to_visit_occurrence_id BIGINT NULL
|
||
|
|
)
|
||
|
|
DISTKEY(person_id);
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE ON RANDOM
|
||
|
|
CREATE TABLE fact_relationship
|
||
|
|
(domain_concept_id_1 INTEGER NOT NULL ,
|
||
|
|
fact_id_1 BIGINT NOT NULL ,
|
||
|
|
domain_concept_id_2 INTEGER NOT NULL ,
|
||
|
|
fact_id_2 BIGINT NOT NULL ,
|
||
|
|
relationship_concept_id INTEGER NOT NULL
|
||
|
|
)
|
||
|
|
DISTSTYLE ALL;
|
||
|
|
|
||
|
|
|
||
|
|
|
||
|
|
/************************
|
||
|
|
|
||
|
|
Standardized health system data
|
||
|
|
|
||
|
|
************************/
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE ON RANDOM
|
||
|
|
CREATE TABLE location
|
||
|
|
(location_id BIGINT NOT NULL ,
|
||
|
|
address_1 VARCHAR(50) NULL ,
|
||
|
|
address_2 VARCHAR(50) NULL ,
|
||
|
|
city VARCHAR(50) NULL ,
|
||
|
|
state VARCHAR(2) NULL ,
|
||
|
|
zip VARCHAR(9) NULL ,
|
||
|
|
county VARCHAR(20) NULL ,
|
||
|
|
country VARCHAR(100) NULL ,
|
||
|
|
location_source_value VARCHAR(50) NULL ,
|
||
|
|
latitude FLOAT NULL ,
|
||
|
|
longitude FLOAT NULL
|
||
|
|
)
|
||
|
|
DISTSTYLE ALL;
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE ON RANDOM
|
||
|
|
CREATE TABLE location_history --Table added
|
||
|
|
(location_history_id BIGINT NOT NULL ,
|
||
|
|
location_id BIGINT NOT NULL ,
|
||
|
|
relationship_type_concept_id INTEGER NULL , --Recent addition based on github discussion
|
||
|
|
domain_id VARCHAR(50) NOT NULL ,
|
||
|
|
entity_id BIGINT NOT NULL ,
|
||
|
|
start_date DATE NOT NULL ,
|
||
|
|
end_date DATE NULL
|
||
|
|
)
|
||
|
|
DISTSTYLE ALL;
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE ON RANDOM
|
||
|
|
CREATE TABLE care_site
|
||
|
|
(care_site_id BIGINT NOT NULL ,
|
||
|
|
care_site_name VARCHAR(255) NULL ,
|
||
|
|
place_of_service_concept_id INTEGER NULL ,
|
||
|
|
location_id BIGINT NULL ,
|
||
|
|
care_site_source_value VARCHAR(50) NULL ,
|
||
|
|
place_of_service_source_value VARCHAR(50) NULL
|
||
|
|
)
|
||
|
|
DISTSTYLE ALL;
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE ON RANDOM
|
||
|
|
CREATE TABLE provider
|
||
|
|
(provider_id BIGINT NOT NULL ,
|
||
|
|
provider_name VARCHAR(255) NULL ,
|
||
|
|
NPI VARCHAR(20) NULL ,
|
||
|
|
DEA VARCHAR(20) NULL ,
|
||
|
|
specialty_concept_id INTEGER NULL ,
|
||
|
|
care_site_id BIGINT NULL ,
|
||
|
|
year_of_birth INTEGER NULL ,
|
||
|
|
gender_concept_id INTEGER NULL ,
|
||
|
|
provider_source_value VARCHAR(50) NULL ,
|
||
|
|
specialty_source_value VARCHAR(50) NULL ,
|
||
|
|
specialty_source_concept_id INTEGER NULL ,
|
||
|
|
gender_source_value VARCHAR(50) NULL ,
|
||
|
|
gender_source_concept_id INTEGER NULL
|
||
|
|
)
|
||
|
|
DISTSTYLE ALL;
|
||
|
|
|
||
|
|
|
||
|
|
/************************
|
||
|
|
|
||
|
|
Standardized health economics
|
||
|
|
|
||
|
|
************************/
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE_ON_KEY(person_id)
|
||
|
|
CREATE TABLE payer_plan_period
|
||
|
|
(payer_plan_period_id BIGINT NOT NULL ,
|
||
|
|
person_id BIGINT NOT NULL ,
|
||
|
|
contract_person_id BIGINT NULL ,
|
||
|
|
payer_plan_period_start_date DATE NOT NULL ,
|
||
|
|
payer_plan_period_end_date DATE NOT NULL ,
|
||
|
|
payer_concept_id INTEGER NULL ,
|
||
|
|
plan_concept_id INTEGER NULL ,
|
||
|
|
contract_concept_id INTEGER NULL ,
|
||
|
|
sponsor_concept_id INTEGER NULL ,
|
||
|
|
stop_reason_concept_id INTEGER NULL ,
|
||
|
|
payer_source_value VARCHAR(50) NULL ,
|
||
|
|
payer_source_concept_id INTEGER NULL ,
|
||
|
|
plan_source_value VARCHAR(50) NULL ,
|
||
|
|
plan_source_concept_id INTEGER NULL ,
|
||
|
|
contract_source_value VARCHAR(50) NULL ,
|
||
|
|
contract_source_concept_id INTEGER NULL ,
|
||
|
|
sponsor_source_value VARCHAR(50) NULL ,
|
||
|
|
sponsor_source_concept_id INTEGER NULL ,
|
||
|
|
family_source_value VARCHAR(50) NULL ,
|
||
|
|
stop_reason_source_value VARCHAR(50) NULL ,
|
||
|
|
stop_reason_source_concept_id INTEGER NULL
|
||
|
|
)
|
||
|
|
DISTKEY(person_id);
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE ON KEY(person_id)
|
||
|
|
CREATE TABLE cost
|
||
|
|
(cost_id BIGINT NOT NULL ,
|
||
|
|
person_id BIGINT NOT NULL,
|
||
|
|
cost_event_id BIGINT NOT NULL ,
|
||
|
|
cost_domain_id VARCHAR(20) NOT NULL ,
|
||
|
|
--cost_event_table_concept_id INTEGER NOT NULL , /*This is still in discussion and most likely will replace cost_domain_id at 9/4 meeting*/
|
||
|
|
cost_concept_id INTEGER NOT NULL ,
|
||
|
|
cost_type_concept_id INTEGER NOT NULL ,
|
||
|
|
currency_concept_id INTEGER NULL ,
|
||
|
|
cost FLOAT NULL ,
|
||
|
|
incurred_date DATE NOT NULL ,
|
||
|
|
billed_date DATE NULL ,
|
||
|
|
paid_date DATE NULL ,
|
||
|
|
revenue_code_concept_id INTEGER NULL ,
|
||
|
|
drg_concept_id INTEGER NULL ,
|
||
|
|
cost_source_value VARCHAR(50) NULL ,
|
||
|
|
cost_source_concept_id INTEGER NULL ,
|
||
|
|
revenue_code_source_value VARCHAR(50) NULL ,
|
||
|
|
drg_source_value VARCHAR(3) NULL ,
|
||
|
|
payer_plan_period_id BIGINT NULL
|
||
|
|
)
|
||
|
|
DISTKEY(person_id);
|
||
|
|
|
||
|
|
|
||
|
|
/************************
|
||
|
|
|
||
|
|
Standardized derived elements
|
||
|
|
|
||
|
|
************************/
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE_ON_KEY(subject_id)
|
||
|
|
CREATE TABLE cohort
|
||
|
|
(cohort_definition_id BIGINT NOT NULL ,
|
||
|
|
subject_id BIGINT NOT NULL ,
|
||
|
|
cohort_start_date DATE NOT NULL ,
|
||
|
|
cohort_end_date DATE NOT NULL
|
||
|
|
)
|
||
|
|
DISTKEY(subject_id);
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE_ON_KEY(subject_id)
|
||
|
|
CREATE TABLE cohort_attribute
|
||
|
|
(cohort_definition_id BIGINT NOT NULL ,
|
||
|
|
subject_id BIGINT NOT NULL ,
|
||
|
|
cohort_start_date DATE NOT NULL ,
|
||
|
|
cohort_end_date DATE NOT NULL ,
|
||
|
|
attribute_definition_id BIGINT NOT NULL ,
|
||
|
|
value_as_number FLOAT NULL ,
|
||
|
|
value_as_concept_id INTEGER NULL
|
||
|
|
)
|
||
|
|
DISTKEY(subject_id);
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE_ON_KEY(person_id)
|
||
|
|
CREATE TABLE drug_era
|
||
|
|
(drug_era_id BIGINT NOT NULL ,
|
||
|
|
person_id BIGINT NOT NULL ,
|
||
|
|
drug_concept_id INTEGER NOT NULL ,
|
||
|
|
drug_era_start_date DATE NOT NULL ,
|
||
|
|
drug_era_end_date DATE NOT NULL ,
|
||
|
|
drug_exposure_count INTEGER NULL ,
|
||
|
|
gap_days INTEGER NULL
|
||
|
|
)
|
||
|
|
DISTKEY(person_id);
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE_ON_KEY(person_id)
|
||
|
|
CREATE TABLE dose_era
|
||
|
|
(dose_era_id BIGINT NOT NULL ,
|
||
|
|
person_id BIGINT NOT NULL ,
|
||
|
|
drug_concept_id INTEGER NOT NULL ,
|
||
|
|
unit_concept_id INTEGER NOT NULL ,
|
||
|
|
dose_value FLOAT NOT NULL ,
|
||
|
|
dose_era_start_date DATE NOT NULL ,
|
||
|
|
dose_era_end_date DATE NOT NULL
|
||
|
|
)
|
||
|
|
DISTKEY(person_id);
|
||
|
|
|
||
|
|
|
||
|
|
--HINT DISTRIBUTE_ON_KEY(person_id)
|
||
|
|
CREATE TABLE condition_era
|
||
|
|
(condition_era_id BIGINT NOT NULL ,
|
||
|
|
person_id BIGINT NOT NULL ,
|
||
|
|
condition_concept_id INTEGER NOT NULL ,
|
||
|
|
condition_era_start_date DATE NOT NULL ,
|
||
|
|
condition_era_end_date DATE NOT NULL ,
|
||
|
|
condition_occurrence_count INTEGER NULL
|
||
|
|
)
|
||
|
|
DISTKEY(person_id);
|