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vocab_load.sql 3.2 KB
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omop postgresql revisado  
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/*********************************************************************************
# Copyright 2014 Observational Health Data Sciences and Informatics
#
# 
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
# 
#     http://www.apache.org/licenses/LICENSE-2.0
# 
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an "AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.
********************************************************************************/

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Script to load the common data model, version 5.0 vocabulary tables for PostgreSQL database on Windows (MS-DOS style file paths)
The database account running this script must have the "superuser" permission in the database.

Notes

1) There is no data file load for the SOURCE_TO_CONCEPT_MAP table because that table is deprecated in CDM version 5.0
2) This script assumes the CDM version 5 vocabulary zip file has been unzipped into the "C:\CDMV5VOCAB" directory. 
3) If you unzipped your CDM version 5 vocabulary files into a different directory then replace all file paths below, with your directory path.
4) Truncate each table that will be lodaed below, before running this script.

last revised: 5 Dec 2014

author:  Lee Evans


*************************/
SET session_replication_role = 'replica';


\copy omop.DRUG_STRENGTH FROM './vocabulary/DRUG_STRENGTH.csv' WITH DELIMITER E'\t' CSV HEADER QUOTE E'\b' ;

\copy omop.CONCEPT FROM './vocabulary/CONCEPT.csv' WITH DELIMITER E'\t' CSV HEADER QUOTE E'\b' ;

\copy  omop.CONCEPT_RELATIONSHIP FROM './vocabulary/CONCEPT_RELATIONSHIP.csv' WITH DELIMITER E'\t' CSV HEADER QUOTE E'\b' ;

\copy omop.CONCEPT_ANCESTOR FROM './vocabulary/CONCEPT_ANCESTOR.csv' WITH DELIMITER E'\t' CSV HEADER QUOTE E'\b' ;

\copy omop.CONCEPT_SYNONYM FROM './vocabulary/CONCEPT_SYNONYM.csv' WITH DELIMITER E'\t' CSV HEADER QUOTE E'\b' ;

\copy omop.VOCABULARY FROM './vocabulary/VOCABULARY.csv' WITH DELIMITER E'\t' CSV HEADER QUOTE E'\b' ;

\copy omop.RELATIONSHIP FROM './vocabulary/RELATIONSHIP.csv' WITH DELIMITER E'\t' CSV HEADER QUOTE E'\b' ;

\copy omop.CONCEPT_CLASS FROM './vocabulary/CONCEPT_CLASS.csv' WITH DELIMITER E'\t' CSV HEADER QUOTE E'\b' ;

\copy omop.DOMAIN FROM './vocabulary/DOMAIN.csv' WITH DELIMITER E'\t' CSV HEADER QUOTE E'\b' ;

SET session_replication_role = 'origin';