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mimic-iii.yaml
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mimic-iii.yaml
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# Configuration file for the MIMIC-III schema
# Table ADMISSIONS
databaseChangeLog:
- preConditions:
- runningAs:
username: postgres
- changeSet:
id: 1
author: lcp
changes:
- createTable:
tableName: ADMISSIONS
columns:
- column:
name: ROW_ID
type: INT
constraints:
nullable: false
- column:
name: SUBJECT_ID
type: INT
constraints:
nullable: false
- column:
name: HADM_ID
type: INT
constraints:
nullable: false
- column:
name: ADMITTIME
type: TIMESTAMP(0)
constraints:
nullable: false
- column:
name: DISCHTIME
type: TIMESTAMP(0)
constraints:
nullable: false
- column:
name: DEATHTIME
type: TIMESTAMP(0)
- column:
name: ADMISSION_TYPE
type: VARCHAR(50)
constraints:
nullable: false
- column:
name: ADMISSION_LOCATION
type: VARCHAR(50)
constraints:
nullable: false
- column:
name: DISCHARGE_LOCATION
type: VARCHAR(50)
constraints:
nullable: false
- column:
name: INSURANCE
type: VARCHAR(255)
constraints:
nullable: false
- column:
name: LANGUAGE
type: VARCHAR(10)
- column:
name: RELIGION
type: VARCHAR(50)
- column:
name: MARITAL_STATUS
type: VARCHAR(50)
- column:
name: ETHNICITY
type: VARCHAR(200)
constraints:
nullable: false
- column:
name: EDREGTIME
type: TIMESTAMP(0)
- column:
name: EDOUTTIME
type: TIMESTAMP(0)
- column:
name: DIAGNOSIS
type: VARCHAR(255)
- column:
name: HOSPITAL_EXPIRE_FLAG
type: SMALLINT
- column:
name: HAS_CHARTEVENTS_DATA
type: SMALLINT
constraints:
nullable: false
# Table CALLOUT
- changeSet:
id: 2
author: lcp
changes:
- createTable:
tableName: CALLOUT
columns:
- column:
name: ROW_ID
type: INT
constraints:
nullable: false
- column:
name: SUBJECT_ID
type: INT
constraints:
nullable: false
- column:
name: HADM_ID
type: INT
constraints:
nullable: false
- column:
name: SUBMIT_WARDID
type: INT
- column:
name: SUBMIT_CAREUNIT
type: VARCHAR(15)
- column:
name: CURR_WARDID
type: INT
- column:
name: CURR_CAREUNIT
type: VARCHAR(15)
- column:
name: CALLOUT_WARDID
type: INT
- column:
name: CALLOUT_SERVICE
type: VARCHAR(10)
constraints:
nullable: false
- column:
name: REQUEST_TELE
type: SMALLINT
constraints:
nullable: false
- column:
name: REQUEST_RESP
type: SMALLINT
constraints:
nullable: false
- column:
name: REQUEST_CDIFF
type: SMALLINT
constraints:
nullable: false
- column:
name: REQUEST_MRSA
type: SMALLINT
constraints:
nullable: false
- column:
name: REQUEST_VRE
type: SMALLINT
constraints:
nullable: false
- column:
name: CALLOUT_STATUS
type: VARCHAR(20)
constraints:
nullable: false
- column:
name: CALLOUT_OUTCOME
type: VARCHAR(20)
constraints:
nullable: false
- column:
name: DISCHARGE_WARDID
type: INT
- column:
name: ACKNOWLEDGE_STATUS
type: VARCHAR(20)
constraints:
nullable: false
- column:
name: CREATETIME
type: TIMESTAMP(0)
constraints:
nullable: false
- column:
name: UPDATETIME
type: TIMESTAMP(0)
constraints:
nullable: false
- column:
name: ACKNOWLEDGETIME
type: TIMESTAMP(0)
- column:
name: OUTCOMETIME
type: TIMESTAMP(0)
constraints:
nullable: false
- column:
name: FIRSTRESERVATIONTIME
type: TIMESTAMP(0)
- column:
name: CURRENTRESERVATIONTIME
type: TIMESTAMP(0)
# Table CAREGIVERS
- changeSet:
id: 3
author: lcp
changes:
- createTable:
tableName: CAREGIVERS
columns:
- column:
name: ROW_ID
type: INT
constraints:
nullable: false
- column:
name: CGID
type: INT
constraints:
nullable: false
- column:
name: LABEL
type: VARCHAR(15)
- column:
name: DESCRIPTION
type: VARCHAR(30)
# Table CHARTEVENTS
- changeSet:
id: 4
author: lcp
changes:
- createTable:
tableName: CHARTEVENTS
columns:
- column:
name: ROW_ID
type: INT
constraints:
nullable: false
- column:
name: SUBJECT_ID
type: INT
constraints:
nullable: false
- column:
name: HADM_ID
type: INT
- column:
name: ICUSTAY_ID
type: INT
- column:
name: ITEMID
type: INT
- column:
name: CHARTTIME
type: TIMESTAMP(0)
- column:
name: STORETIME
type: TIMESTAMP(0)
- column:
name: CGID
type: INT
- column:
name: VALUE
type: VARCHAR(255)
- column:
name: VALUENUM
type: DOUBLE PRECISION
- column:
name: VALUEUOM
type: VARCHAR(50)
- column:
name: WARNING
type: INT
- column:
name: ERROR
type: INT
- column:
name: RESULTSTATUS
type: VARCHAR(50)
- column:
name: STOPPED
type: VARCHAR(50)
# PARTITION for Table CHARTEVENTS
# -- CREATE CHARTEVENTS TABLE
# CREATE TABLE chartevents_1 ( CHECK ( itemid >= 1 AND itemid < 210 )) INHERITS (chartevents);
# CREATE TABLE chartevents_2 ( CHECK ( itemid >= 210 AND itemid < 250 )) INHERITS (chartevents);
# CREATE TABLE chartevents_3 ( CHECK ( itemid >= 250 AND itemid < 614 )) INHERITS (chartevents);
# CREATE TABLE chartevents_4 ( CHECK ( itemid >= 614 AND itemid < 640 )) INHERITS (chartevents);
# CREATE TABLE chartevents_5 ( CHECK ( itemid >= 640 AND itemid < 742 )) INHERITS (chartevents);
# CREATE TABLE chartevents_6 ( CHECK ( itemid >= 742 AND itemid < 1800 )) INHERITS (chartevents);
# CREATE TABLE chartevents_7 ( CHECK ( itemid >= 1800 AND itemid < 2700 )) INHERITS (chartevents);
# CREATE TABLE chartevents_8 ( CHECK ( itemid >= 2700 AND itemid < 3700 )) INHERITS (chartevents);
# CREATE TABLE chartevents_9 ( CHECK ( itemid >= 3700 AND itemid < 4700 )) INHERITS (chartevents);
# CREATE TABLE chartevents_10 ( CHECK ( itemid >= 4700 AND itemid < 6000 )) INHERITS (chartevents);
# CREATE TABLE chartevents_11 ( CHECK ( itemid >= 6000 AND itemid < 7000 )) INHERITS (chartevents);
# CREATE TABLE chartevents_12 ( CHECK ( itemid >= 7000 AND itemid < 8000 )) INHERITS (chartevents);
# CREATE TABLE chartevents_13 ( CHECK ( itemid >= 8000 AND itemid < 220074 )) INHERITS (chartevents);
# CREATE TABLE chartevents_14 ( CHECK ( itemid >= 220074 AND itemid < 323769 )) INHERITS (chartevents);
#
# -- CREATE CHARTEVENTS TRIGGER
# CREATE OR REPLACE FUNCTION chartevents_insert_trigger()
# RETURNS TRIGGER AS $$
# BEGIN
# IF ( NEW.itemid >= 1 AND NEW.itemid < 210 ) THEN INSERT INTO chartevents_1 VALUES (NEW.*);
# ELSIF ( NEW.itemid >= 210 AND NEW.itemid < 250 ) THEN INSERT INTO chartevents_2 VALUES (NEW.*);
# ELSIF ( NEW.itemid >= 250 AND NEW.itemid < 614 ) THEN INSERT INTO chartevents_3 VALUES (NEW.*);
# ELSIF ( NEW.itemid >= 614 AND NEW.itemid < 640 ) THEN INSERT INTO chartevents_4 VALUES (NEW.*);
# ELSIF ( NEW.itemid >= 640 AND NEW.itemid < 742 ) THEN INSERT INTO chartevents_5 VALUES (NEW.*);
# ELSIF ( NEW.itemid >= 742 AND NEW.itemid < 1800 ) THEN INSERT INTO chartevents_6 VALUES (NEW.*);
# ELSIF ( NEW.itemid >= 1800 AND NEW.itemid < 2700 ) THEN INSERT INTO chartevents_7 VALUES (NEW.*);
# ELSIF ( NEW.itemid >= 2700 AND NEW.itemid < 3700 ) THEN INSERT INTO chartevents_8 VALUES (NEW.*);
# ELSIF ( NEW.itemid >= 3700 AND NEW.itemid < 4700 ) THEN INSERT INTO chartevents_9 VALUES (NEW.*);
# ELSIF ( NEW.itemid >= 4700 AND NEW.itemid < 6000 ) THEN INSERT INTO chartevents_10 VALUES (NEW.*);
# ELSIF ( NEW.itemid >= 6000 AND NEW.itemid < 7000 ) THEN INSERT INTO chartevents_11 VALUES (NEW.*);
# ELSIF ( NEW.itemid >= 7000 AND NEW.itemid < 8000 ) THEN INSERT INTO chartevents_12 VALUES (NEW.*);
# ELSIF ( NEW.itemid >= 8000 AND NEW.itemid < 220074 ) THEN INSERT INTO chartevents_13 VALUES (NEW.*);
# ELSIF ( NEW.itemid >= 220074 AND NEW.itemid < 323769 ) THEN INSERT INTO chartevents_14 VALUES (NEW.*);
# ELSE
# INSERT INTO chartevents_null VALUES (NEW.*);
# END IF;
# RETURN NULL;
# END;
# $$
# LANGUAGE plpgsql;
#
# CREATE TRIGGER insert_chartevents_trigger
# BEFORE INSERT ON chartevents
# FOR EACH ROW EXECUTE PROCEDURE chartevents_insert_trigger();
#
# #Table CPTEVENTS
- changeSet:
id: 5
author: lcp
changes:
- createTable:
tableName: CPTEVENTS
columns:
- column:
name: ROW_ID
type: INT
constraints:
nullable: false
- column:
name: SUBJECT_ID
type: INT
constraints:
nullable: false
- column:
name: HADM_ID
type: INT
constraints:
nullable: false
- column:
name: COSTCENTER
type: VARCHAR(10)
constraints:
nullable: false
- column:
name: CHARTDATE
type: TIMESTAMP(0)
- column:
name: CPT_CD
type: VARCHAR(10)
constraints:
nullable: false
- column:
name: CPT_NUMBER
type: INT
- column:
name: CPT_SUFFIX
type: VARCHAR(5)
- column:
name: TICKET_ID_SEQ
type: INT
- column:
name: SECTIONHEADER
type: VARCHAR(50)
- column:
name: SUBSECTIONHEADER
type: VARCHAR(255)
- column:
name: DESCRIPTION
type: VARCHAR(200)
# Table DATETIMEEVENTS
- changeSet:
id: 6
author: lcp
changes:
- createTable:
tableName: DATETIMEEVENTS
columns:
- column:
name: ROW_ID
type: INT
constraints:
nullable: false
- column:
name: SUBJECT_ID
type: INT
constraints:
nullable: false
- column:
name: HADM_ID
type: INT
- column:
name: ICUSTAY_ID
type: INT
- column:
name: ITEMID
type: INT
constraints:
nullable: false
- column:
name: CHARTTIME
type: TIMESTAMP(0)
constraints:
nullable: false
- column:
name: STORETIME
type: TIMESTAMP(0)
constraints:
nullable: false
- column:
name: CGID
type: INT
constraints:
nullable: false
- column:
name: VALUE
type: TIMESTAMP(0)
- column:
name: VALUEUOM
type: VARCHAR(50)
constraints:
nullable: false
- column:
name: WARNING
type: SMALLINT
- column:
name: ERROR
type: SMALLINT
- column:
name: RESULTSTATUS
type: VARCHAR(50)
- column:
name: STOPPED
type: VARCHAR(50)
# Table DIAGNOSES_ICD
- changeSet:
id: 7
author: lcp
changes:
- createTable:
tableName: DIAGNOSES_ICD
columns:
- column:
name: ROW_ID
type: INT
constraints:
nullable: false
- column:
name: SUBJECT_ID
type: INT
constraints:
nullable: false
- column:
name: HADM_ID
type: INT
constraints:
nullable: false
- column:
name: SEQ_NUM
type: INT
- column:
name: ICD9_CODE
type: VARCHAR(20)
# Table DRGCODES
- changeSet:
id: 8
author: lcp
changes:
- createTable:
tableName: DRGCODES
columns:
- column:
name: ROW_ID
type: INT
constraints:
nullable: false
- column:
name: SUBJECT_ID
type: INT
constraints:
nullable: false
- column:
name: HADM_ID
type: INT
constraints:
nullable: false
- column:
name: DRG_TYPE
type: VARCHAR(20)
constraints:
nullable: false
- column:
name: DRG_CODE
type: VARCHAR(20)
constraints:
nullable: false
- column:
name: DESCRIPTION
type: VARCHAR(255)
- column:
name: DRG_SEVERITY
type: SMALLINT
- column:
name: DRG_MORTALITY
type: SMALLINT
# Table D_CPT
- changeSet:
id: 9
author: lcp
changes:
- createTable:
tableName: D_CPT
columns:
- column:
name: ROW_ID
type: INT
constraints:
nullable: false
- column:
name: CATEGORY
type: SMALLINT
constraints:
nullable: false
- column:
name: SECTIONRANGE
type: VARCHAR(100)
constraints:
nullable: false
- column:
name: SECTIONHEADER
type: VARCHAR(50)
constraints:
nullable: false
- column:
name: SUBSECTIONRANGE
type: VARCHAR(100)
constraints:
nullable: false
- column:
name: SUBSECTIONHEADER
type: VARCHAR(255)
constraints:
nullable: false
- column:
name: CODESUFFIX
type: VARCHAR(5)
- column:
name: MINCODEINSUBSECTION
type: INT
constraints:
nullable: false
- column:
name: MAXCODEINSUBSECTION
type: INT
constraints:
nullable: false
# Table D_ICD_DIAGNOSES
- changeSet:
id: 10
author: lcp
changes:
- createTable:
tableName: D_ICD_DIAGNOSES
columns:
- column:
name: ROW_ID
type: INT
constraints:
nullable: false
- column:
name: ICD9_CODE
type: VARCHAR(10)
constraints:
nullable: false
- column:
name: SHORT_TITLE
type: VARCHAR(50)
constraints:
nullable: false
- column:
name: LONG_TITLE
type: VARCHAR(255)
constraints:
nullable: false
# Table D_ICD_PROCEDURES
- changeSet:
id: 11
author: lcp
changes:
- createTable:
tableName: D_ICD_PROCEDURES
columns:
- column:
name: ROW_ID
type: INT
constraints:
nullable: false
- column:
name: ICD9_CODE
type: VARCHAR(10)
constraints:
nullable: false
- column:
name: SHORT_TITLE
type: VARCHAR(50)
constraints:
nullable: false
- column:
name: LONG_TITLE
type: VARCHAR(255)
constraints:
nullable: false
# Table D_ITEMS
- changeSet:
id: 12
author: lcp
changes:
- createTable:
tableName: D_ITEMS
columns:
- column:
name: ROW_ID
type: INT
constraints:
nullable: false
- column:
name: ITEMID
type: INT
constraints:
nullable: false
- column:
name: LABEL
type: VARCHAR(200)
- column:
name: ABBREVIATION
type: VARCHAR(100)
- column:
name: DBSOURCE
type: VARCHAR(20)
- column:
name: LINKSTO
type: VARCHAR(50)
- column:
name: CATEGORY
type: VARCHAR(100)
- column:
name: UNITNAME
type: VARCHAR(100)
- column:
name: PARAM_TYPE
type: VARCHAR(30)
- column:
name: CONCEPTID
type: INT
# Table D_LABITEMS
- changeSet:
id: 13
author: lcp
changes:
- createTable:
tableName: D_LABITEMS
columns:
- column:
name: ROW_ID
type: INT
constraints:
nullable: false
- column:
name: ITEMID
type: INT
constraints:
nullable: false
- column:
name: LABEL
type: VARCHAR(100)
constraints:
nullable: false
- column:
name: FLUID
type: VARCHAR(100)
constraints:
nullable: false
- column:
name: CATEGORY
type: VARCHAR(100)
constraints:
nullable: false
- column:
name: LOINC_CODE
type: VARCHAR(100)
# Table ICUSTAYS
- changeSet:
id: 14
author: lcp
changes:
- createTable:
tableName: ICUSTAYS
columns:
- column:
name: ROW_ID
type: INT
constraints:
nullable: false
- column:
name: SUBJECT_ID
type: INT
constraints:
nullable: false
- column:
name: HADM_ID
type: INT
constraints:
nullable: false
- column:
name: ICUSTAY_ID
type: INT
constraints:
nullable: false
- column:
name: DBSOURCE
type: VARCHAR(20)
constraints:
nullable: false
- column:
name: FIRST_CAREUNIT
type: VARCHAR(20)
constraints:
nullable: false
- column:
name: LAST_CAREUNIT
type: VARCHAR(20)
constraints:
nullable: false
- column:
name: FIRST_WARDID
type: SMALLINT
constraints:
nullable: false
- column:
name: LAST_WARDID
type: SMALLINT
constraints:
nullable: false
- column:
name: INTIME
type: TIMESTAMP(0)
constraints:
nullable: false
- column:
name: OUTTIME
type: TIMESTAMP(0)
- column:
name: LOS
type: DOUBLE PRECISION
# Table INPUTEVENTS_CV
- changeSet:
id: 15
author: lcp
changes:
- createTable:
tableName: INPUTEVENTS_CV
columns:
- column:
name: ROW_ID
type: INT
constraints:
nullable: false
- column:
name: SUBJECT_ID
type: INT
constraints:
nullable: false
- column:
name: HADM_ID
type: INT
- column:
name: ICUSTAY_ID
type: INT
- column:
name: CHARTTIME
type: TIMESTAMP(0)
- column:
name: ITEMID
type: INT
- column:
name: AMOUNT
type: DOUBLE PRECISION
- column:
name: AMOUNTUOM
type: VARCHAR(30)
- column:
name: RATE
type: DOUBLE PRECISION
- column:
name: RATEUOM
type: VARCHAR(30)
- column:
name: STORETIME
type: TIMESTAMP(0)
- column:
name: CGID
type: INT
- column:
name: ORDERID
type: INT
- column:
name: LINKORDERID
type: INT
- column:
name: STOPPED
type: VARCHAR(30)
- column:
name: NEWBOTTLE
type: INT
- column:
name: ORIGINALAMOUNT
type: DOUBLE PRECISION
- column:
name: ORIGINALAMOUNTUOM
type: VARCHAR(30)
- column:
name: ORIGINALROUTE
type: VARCHAR(30)
- column:
name: ORIGINALRATE
type: DOUBLE PRECISION
- column:
name: ORIGINALRATEUOM
type: VARCHAR(30)
- column:
name: ORIGINALSITE
type: VARCHAR(30)
# Table INPUTEVENTS_MV
- changeSet:
id: 16
author: lcp
changes:
- createTable:
tableName: INPUTEVENTS_MV
columns:
- column:
name: ROW_ID
type: INT
constraints:
nullable: false
- column:
name: SUBJECT_ID
type: INT
constraints:
nullable: false
- column:
name: HADM_ID
type: INT
- column:
name: ICUSTAY_ID
type: INT
- column:
name: STARTTIME
type: TIMESTAMP(0)
- column:
name: ENDTIME
type: TIMESTAMP(0)
- column:
name: ITEMID
type: INT
- column:
name: AMOUNT
type: DOUBLE PRECISION
- column:
name: AMOUNTUOM
type: VARCHAR(30)
- column:
name: RATE
type: DOUBLE PRECISION
- column:
name: RATEUOM
type: VARCHAR(30)
- column:
name: STORETIME
type: TIMESTAMP(0)
- column:
name: CGID
type: INT
- column:
name: ORDERID
type: INT
- column:
name: LINKORDERID
type: INT
- column:
name: ORDERCATEGORYNAME
type: VARCHAR(100)
- column:
name: SECONDARYORDERCATEGORYNAME
type: VARCHAR(100)
- column:
name: ORDERCOMPONENTTYPEDESCRIPTION
type: VARCHAR(200)
- column:
name: ORDERCATEGORYDESCRIPTION
type: VARCHAR(50)
- column:
name: PATIENTWEIGHT
type: DOUBLE PRECISION
- column:
name: TOTALAMOUNT
type: DOUBLE PRECISION
- column:
name: TOTALAMOUNTUOM
type: VARCHAR(50)
- column:
name: ISOPENBAG
type: SMALLINT
- column:
name: CONTINUEINNEXTDEPT
type: SMALLINT
- column:
name: CANCELREASON
type: SMALLINT
- column:
name: STATUSDESCRIPTION
type: VARCHAR(30)
- column:
name: COMMENTS_EDITEDBY
type: VARCHAR(30)
- column:
name: COMMENTS_CANCELEDBY
type: VARCHAR(40)
- column:
name: COMMENTS_DATE
type: TIMESTAMP(0)
- column:
name: ORIGINALAMOUNT
type: DOUBLE PRECISION
- column:
name: ORIGINALRATE
type: DOUBLE PRECISION
# Table LABEVENTS
- changeSet:
id: 17
author: lcp
changes:
- createTable:
tableName: LABEVENTS
columns:
- column:
name: ROW_ID
type: INT
constraints:
nullable: false
- column:
name: SUBJECT_ID
type: INT
constraints:
nullable: false
- column:
name: HADM_ID
type: INT
- column:
name: ITEMID
type: INT
constraints:
nullable: false
- column:
name: CHARTTIME
type: TIMESTAMP(0)
- column:
name: VALUE
type: VARCHAR(200)
- column:
name: VALUENUM
type: DOUBLE PRECISION
- column:
name: VALUEUOM
type: VARCHAR(20)
- column:
name: FLAG
type: VARCHAR(20)
# Table MICROBIOLOGYEVENTS
- changeSet:
id: 18
author: lcp
changes:
- createTable:
tableName: MICROBIOLOGYEVENTS
columns: