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Merge pull request #157 from OHDSI/cdm_V5.3.-issue-150 

Closes #150
This commit is contained in:
clairblacketer 2018-02-07 19:50:04 -05:00 committed by GitHub
parent 9c33c5478b 990a1a1e89
commit 33294de80c
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GPG Key ID: 4AEE18F83AFDEB23
9 changed files with 58 additions and 49 deletions
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2
BigQuery/OMOP CDM bigquery ddl.txt
View File

@ -390,8 +390,8 @@ create table measurement
person_id integer not null ,
measurement_concept_id integer not null ,
measurement_date date not null ,
measurement_datetime datetime null ,
measurement_time varchar(10) null ,
measurement_datetime datetime null ,
measurement_type_concept_id integer not null ,
operator_concept_id integer null ,
value_as_number float null ,

1
Documentation/CommonDataModel_Wiki_Files/StandardizedClinicalDataTables/MEASUREMENT.md
View File

@ -7,6 +7,7 @@ Field|Required|Type|Description
|measurement_concept_id|Yes|integer|A foreign key to the standard measurement concept identifier in the Standardized Vocabularies.|
|measurement_date|Yes|date|The date of the Measurement.|
|measurement_datetime|No|datetime|The date and time of the Measurement. Some database systems don't have a datatype of time. To accomodate all temporal analyses, datatype datetime can be used (combining measurement_date and measurement_time [forum discussion](http://forums.ohdsi.org/t/date-time-and-datetime-problem-and-the-world-of-hours-and-1day/314))|
|measurement_time |No|varchar(10)|The time of the Measurement. This is present for backwards compatibility and will deprecated in an upcoming version|
|measurement_type_concept_id|Yes|integer|A foreign key to the predefined Concept in the Standardized Vocabularies reflecting the provenance from where the Measurement record was recorded.|
|operator_concept_id|No|integer|A foreign key identifier to the predefined Concept in the Standardized Vocabularies reflecting the mathematical operator that is applied to the value_as_number. Operators are <, <=, =, >=, >.|
|value_as_number|No|float|A Measurement result where the result is expressed as a numeric value.|

2
Impala/OMOP CDM impala ddl.txt
View File

@ -818,6 +818,8 @@ CREATE TABLE measurement
measurement_datetime TIMESTAMP,
measurement_time VARCHAR(10),
measurement_type_concept_id INTEGER,
operator_concept_id INTEGER,

3
Netezza/OMOP CDM netezza ddl.txt
View File

@ -479,7 +479,8 @@ CREATE TABLE measurement
person_id INTEGER NOT NULL ,
measurement_concept_id INTEGER NOT NULL ,
measurement_date DATE NOT NULL ,
measurement_datetime DATETIME NULL ,
measurement_datetime DATETIME NULL ,
measurement_time VARCHAR(10) NULL ,
measurement_type_concept_id INTEGER NOT NULL ,
operator_concept_id INTEGER NULL ,
value_as_number REAL NULL ,

5
Oracle/OMOP CDM oracle ddl.txt
View File

@ -447,7 +447,8 @@ CREATE TABLE measurement
person_id INTEGER NOT NULL ,
measurement_concept_id INTEGER NOT NULL ,
measurement_date DATE NOT NULL ,
measurement_datetime TIMESTAMP NULL ,
measurement_datetime TIMESTAMP NULL ,
measurement_time VARCHAR(10) NULL ,
measurement_type_concept_id INTEGER NOT NULL ,
operator_concept_id INTEGER NULL ,
value_as_number FLOAT NULL ,
@ -622,7 +623,7 @@ CREATE TABLE payer_plan_period
sponsor_source_concept_id INTEGER NULL ,
family_source_value VARCHAR(50) NULL ,
stop_reason_concept_id INTEGER NULL ,
stop_reason_source_value VARCHAR(50) NULL ,
stop_reason_source_value VARCHAR(50) NULL ,
stop_reason_source_concept_id INTEGER NULL
)
;

41
ParallelDataWarehouse/OMOP CDM pdw ddl.txt
View File

@ -207,7 +207,7 @@ Standardized clinical data
************************/
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE person
(person_id INTEGER NOT NULL ,
gender_concept_id INTEGER NOT NULL ,
@ -231,7 +231,7 @@ IF XACT_STATE() = 1 COMMIT; CREATE TABLE person
WITH (DISTRIBUTION = HASH(person_id));
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE observation_period
(observation_period_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -242,7 +242,7 @@ IF XACT_STATE() = 1 COMMIT; CREATE TABLE observation_period
WITH (DISTRIBUTION = HASH(person_id));
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE specimen
(specimen_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -263,7 +263,7 @@ IF XACT_STATE() = 1 COMMIT; CREATE TABLE specimen
WITH (DISTRIBUTION = HASH(person_id));
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE death
(person_id INTEGER NOT NULL ,
death_date DATE NOT NULL ,
@ -276,7 +276,7 @@ IF XACT_STATE() = 1 COMMIT; CREATE TABLE death
WITH (DISTRIBUTION = HASH(person_id));
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE visit_occurrence
(visit_occurrence_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -299,7 +299,7 @@ IF XACT_STATE() = 1 COMMIT; CREATE TABLE visit_occurrence
WITH (DISTRIBUTION = HASH(person_id));
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE visit_detail
(visit_detail_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -324,7 +324,7 @@ IF XACT_STATE() = 1 COMMIT; CREATE TABLE visit_detail
WITH (DISTRIBUTION = HASH(person_id));
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE procedure_occurrence
(procedure_occurrence_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -344,7 +344,7 @@ IF XACT_STATE() = 1 COMMIT; CREATE TABLE procedure_occurrence
WITH (DISTRIBUTION = HASH(person_id));
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE drug_exposure
(drug_exposure_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -373,7 +373,7 @@ IF XACT_STATE() = 1 COMMIT; CREATE TABLE drug_exposure
WITH (DISTRIBUTION = HASH(person_id));
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE device_exposure
(device_exposure_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -394,7 +394,7 @@ IF XACT_STATE() = 1 COMMIT; CREATE TABLE device_exposure
WITH (DISTRIBUTION = HASH(person_id));
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE condition_occurrence
(condition_occurrence_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -416,13 +416,14 @@ IF XACT_STATE() = 1 COMMIT; CREATE TABLE condition_occurrence
WITH (DISTRIBUTION = HASH(person_id));
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE measurement
(measurement_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
measurement_concept_id INTEGER NOT NULL ,
measurement_date DATE NOT NULL ,
measurement_datetime DATETIME NULL ,
measurement_datetime DATETIME NULL ,
measurement_time VARCHAR(10) NULL ,
measurement_type_concept_id INTEGER NOT NULL ,
operator_concept_id INTEGER NULL ,
value_as_number FLOAT NULL ,
@ -441,7 +442,7 @@ IF XACT_STATE() = 1 COMMIT; CREATE TABLE measurement
WITH (DISTRIBUTION = HASH(person_id));
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE note
(note_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -481,7 +482,7 @@ IF XACT_STATE() = 1 COMMIT; CREATE TABLE note_nlp
WITH (DISTRIBUTION = REPLICATE);
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE observation
(observation_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -572,7 +573,7 @@ Standardized health economics
************************/
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE payer_plan_period
(payer_plan_period_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -629,7 +630,7 @@ Standardized derived elements
************************/
--HINT DISTRIBUTE_ON_KEY(subject_id)
--HINT DISTRIBUTE_ON_KEY(subject_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE cohort
(cohort_definition_id INTEGER NOT NULL ,
subject_id INTEGER NOT NULL ,
@ -639,7 +640,7 @@ IF XACT_STATE() = 1 COMMIT; CREATE TABLE cohort
WITH (DISTRIBUTION = HASH(subject_id));
--HINT DISTRIBUTE_ON_KEY(subject_id)
--HINT DISTRIBUTE_ON_KEY(subject_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE cohort_attribute
(cohort_definition_id INTEGER NOT NULL ,
subject_id INTEGER NOT NULL ,
@ -652,7 +653,7 @@ IF XACT_STATE() = 1 COMMIT; CREATE TABLE cohort_attribute
WITH (DISTRIBUTION = HASH(subject_id));
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE drug_era
(drug_era_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -665,7 +666,7 @@ IF XACT_STATE() = 1 COMMIT; CREATE TABLE drug_era
WITH (DISTRIBUTION = HASH(person_id));
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE dose_era
(dose_era_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -678,7 +679,7 @@ IF XACT_STATE() = 1 COMMIT; CREATE TABLE dose_era
WITH (DISTRIBUTION = HASH(person_id));
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
IF XACT_STATE() = 1 COMMIT; CREATE TABLE condition_era
(condition_era_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,

9
PostgreSQL/OMOP CDM postgresql ddl.txt
View File

@ -447,14 +447,15 @@ CREATE TABLE measurement
person_id INTEGER NOT NULL ,
measurement_concept_id INTEGER NOT NULL ,
measurement_date DATE NOT NULL ,
measurement_datetime TIMESTAMP NULL ,
measurement_datetime TIMESTAMP NULL ,
measurement_time VARCHAR(10) NULL ,
measurement_type_concept_id INTEGER NOT NULL ,
operator_concept_id INTEGER NULL ,
value_as_number NUMERIC NULL ,
value_as_number NUMERIC NULL ,
value_as_concept_id INTEGER NULL ,
unit_concept_id INTEGER NULL ,
range_low NUMERIC NULL ,
range_high NUMERIC NULL ,
range_low NUMERIC NULL ,
range_high NUMERIC NULL ,
provider_id INTEGER NULL ,
visit_occurrence_id INTEGER NULL ,
visit_detail_id INTEGER NULL ,

41
Redshift/OMOP CDM redshift ddl.txt
View File

@ -207,7 +207,7 @@ Standardized clinical data
************************/
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
CREATE TABLE person
(person_id INTEGER NOT NULL ,
gender_concept_id INTEGER NOT NULL ,
@ -231,7 +231,7 @@ CREATE TABLE person
DISTKEY(person_id);
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
CREATE TABLE observation_period
(observation_period_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -242,7 +242,7 @@ CREATE TABLE observation_period
DISTKEY(person_id);
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
CREATE TABLE specimen
(specimen_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -263,7 +263,7 @@ CREATE TABLE specimen
DISTKEY(person_id);
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
CREATE TABLE death
(person_id INTEGER NOT NULL ,
death_date DATE NOT NULL ,
@ -276,7 +276,7 @@ CREATE TABLE death
DISTKEY(person_id);
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
CREATE TABLE visit_occurrence
(visit_occurrence_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -299,7 +299,7 @@ CREATE TABLE visit_occurrence
DISTKEY(person_id);
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
CREATE TABLE visit_detail
(visit_detail_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -324,7 +324,7 @@ CREATE TABLE visit_detail
DISTKEY(person_id);
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
CREATE TABLE procedure_occurrence
(procedure_occurrence_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -344,7 +344,7 @@ CREATE TABLE procedure_occurrence
DISTKEY(person_id);
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
CREATE TABLE drug_exposure
(drug_exposure_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -373,7 +373,7 @@ CREATE TABLE drug_exposure
DISTKEY(person_id);
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
CREATE TABLE device_exposure
(device_exposure_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -394,7 +394,7 @@ CREATE TABLE device_exposure
DISTKEY(person_id);
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
CREATE TABLE condition_occurrence
(condition_occurrence_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -416,13 +416,14 @@ CREATE TABLE condition_occurrence
DISTKEY(person_id);
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
CREATE TABLE measurement
(measurement_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
measurement_concept_id INTEGER NOT NULL ,
measurement_date DATE NOT NULL ,
measurement_datetime TIMESTAMP NULL ,
measurement_datetime TIMESTAMP NULL ,
measurement_time VARCHAR(10) NULL ,
measurement_type_concept_id INTEGER NOT NULL ,
operator_concept_id INTEGER NULL ,
value_as_number FLOAT NULL ,
@ -441,7 +442,7 @@ CREATE TABLE measurement
DISTKEY(person_id);
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
CREATE TABLE note
(note_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -481,7 +482,7 @@ CREATE TABLE note_nlp
DISTSTYLE ALL;
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
CREATE TABLE observation
(observation_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -572,7 +573,7 @@ Standardized health economics
************************/
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
CREATE TABLE payer_plan_period
(payer_plan_period_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -629,7 +630,7 @@ Standardized derived elements
************************/
--HINT DISTRIBUTE_ON_KEY(subject_id)
--HINT DISTRIBUTE_ON_KEY(subject_id)
CREATE TABLE cohort
(cohort_definition_id INTEGER NOT NULL ,
subject_id INTEGER NOT NULL ,
@ -639,7 +640,7 @@ CREATE TABLE cohort
DISTKEY(subject_id);
--HINT DISTRIBUTE_ON_KEY(subject_id)
--HINT DISTRIBUTE_ON_KEY(subject_id)
CREATE TABLE cohort_attribute
(cohort_definition_id INTEGER NOT NULL ,
subject_id INTEGER NOT NULL ,
@ -652,7 +653,7 @@ CREATE TABLE cohort_attribute
DISTKEY(subject_id);
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
CREATE TABLE drug_era
(drug_era_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -665,7 +666,7 @@ CREATE TABLE drug_era
DISTKEY(person_id);
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
CREATE TABLE dose_era
(dose_era_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,
@ -678,7 +679,7 @@ CREATE TABLE dose_era
DISTKEY(person_id);
--HINT DISTRIBUTE_ON_KEY(person_id)
--HINT DISTRIBUTE_ON_KEY(person_id)
CREATE TABLE condition_era
(condition_era_id INTEGER NOT NULL ,
person_id INTEGER NOT NULL ,

3
Sql Server/OMOP CDM sql server ddl.txt
View File

@ -447,7 +447,8 @@ CREATE TABLE measurement
person_id INTEGER NOT NULL ,
measurement_concept_id INTEGER NOT NULL ,
measurement_date DATE NOT NULL ,
measurement_datetime DATETIME NULL ,
measurement_datetime DATETIME NULL ,
measurement_time VARCHAR(10) NULL ,
measurement_type_concept_id INTEGER NOT NULL ,
operator_concept_id INTEGER NULL ,
value_as_number FLOAT NULL ,