text: /*********************************************************************************
  # 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 create the required indexes within OMOP common data model, version 5.0 for PostgreSQL database
  
  last revised: 12 Oct 2014
  
  author:  Patrick Ryan
  
  description:  These indices are considered a minimal requirement to ensure adequate performance of analyses.
  
  *************************/
  
  
  /************************
  
  Standardized vocabulary
  
  ************************/
  
  CREATE UNIQUE INDEX  idx_concept_concept_id  ON  concept  (concept_id ASC);
  CLUSTER  concept  USING  idx_concept_concept_id ;
  CREATE INDEX idx_concept_code ON concept (concept_code ASC);
  CREATE INDEX idx_concept_vocabluary_id ON concept (vocabulary_id ASC);
  CREATE INDEX idx_concept_domain_id ON concept (domain_id ASC);
  CREATE INDEX idx_concept_class_id ON concept (concept_class_id ASC);
  
  CREATE UNIQUE INDEX  idx_vocabulary_vocabulary_id  ON  vocabulary  (vocabulary_id ASC);
  CLUSTER  vocabulary  USING  idx_vocabulary_vocabulary_id ;
  
  CREATE UNIQUE INDEX  idx_domain_domain_id  ON  domain  (domain_id ASC);
  CLUSTER  domain  USING  idx_domain_domain_id ;
  
  CREATE UNIQUE INDEX  idx_concept_class_class_id  ON  concept_class  (concept_class_id ASC);
  CLUSTER  concept_class  USING  idx_concept_class_class_id ;
  
  CREATE INDEX idx_concept_relationship_id_1 ON concept_relationship (concept_id_1 ASC); 
  CREATE INDEX idx_concept_relationship_id_2 ON concept_relationship (concept_id_2 ASC); 
  CREATE INDEX idx_concept_relationship_id_3 ON concept_relationship (relationship_id ASC); 
  
  CREATE UNIQUE INDEX  idx_relationship_rel_id  ON  relationship  (relationship_id ASC);
  CLUSTER  relationship  USING  idx_relationship_rel_id ;
  
  CREATE INDEX  idx_concept_synonym_id  ON  concept_synonym  (concept_id ASC);
  CLUSTER  concept_synonym  USING  idx_concept_synonym_id ;
  
  CREATE INDEX  idx_concept_ancestor_id_1  ON  concept_ancestor  (ancestor_concept_id ASC);
  CLUSTER  concept_ancestor  USING  idx_concept_ancestor_id_1 ;
  CREATE INDEX idx_concept_ancestor_id_2 ON concept_ancestor (descendant_concept_id ASC);
  
  CREATE INDEX  idx_source_to_concept_map_id_3  ON  source_to_concept_map  (target_concept_id ASC);
  CLUSTER  source_to_concept_map  USING  idx_source_to_concept_map_id_3 ;
  CREATE INDEX idx_source_to_concept_map_id_1 ON source_to_concept_map (source_vocabulary_id ASC);
  CREATE INDEX idx_source_to_concept_map_id_2 ON source_to_concept_map (target_vocabulary_id ASC);
  CREATE INDEX idx_source_to_concept_map_code ON source_to_concept_map (source_code ASC);
  
  CREATE INDEX  idx_drug_strength_id_1  ON  drug_strength  (drug_concept_id ASC);
  CLUSTER  drug_strength  USING  idx_drug_strength_id_1 ;
  CREATE INDEX idx_drug_strength_id_2 ON drug_strength (ingredient_concept_id ASC);
  
  CREATE INDEX  idx_cohort_definition_id  ON  cohort_definition  (cohort_definition_id ASC);
  CLUSTER  cohort_definition  USING  idx_cohort_definition_id ;
  
  CREATE INDEX  idx_attribute_definition_id  ON  attribute_definition  (attribute_definition_id ASC);
  CLUSTER  attribute_definition  USING  idx_attribute_definition_id ;
  
  
  /**************************
  
  Standardized meta-data
  
  ***************************/
  
  
  
  
  
  /************************
  
  Standardized clinical data
  
  ************************/
  
  CREATE UNIQUE INDEX  idx_person_id  ON  person  (person_id ASC);
  CLUSTER  person  USING  idx_person_id ;
  
  CREATE INDEX  idx_observation_period_id  ON  observation_period  (person_id ASC);
  CLUSTER  observation_period  USING  idx_observation_period_id ;
  
  CREATE INDEX  idx_specimen_person_id  ON  specimen  (person_id ASC);
  CLUSTER  specimen  USING  idx_specimen_person_id ;
  CREATE INDEX idx_specimen_concept_id ON specimen (specimen_concept_id ASC);
  
  CREATE INDEX  idx_death_person_id  ON  death  (person_id ASC);
  CLUSTER  death  USING  idx_death_person_id ;
  
  CREATE INDEX  idx_visit_person_id  ON  visit_occurrence  (person_id ASC);
  CLUSTER  visit_occurrence  USING  idx_visit_person_id ;
  CREATE INDEX idx_visit_concept_id ON visit_occurrence (visit_concept_id ASC);
  
  CREATE INDEX  idx_procedure_person_id  ON  procedure_occurrence  (person_id ASC);
  CLUSTER  procedure_occurrence  USING  idx_procedure_person_id ;
  CREATE INDEX idx_procedure_concept_id ON procedure_occurrence (procedure_concept_id ASC);
  CREATE INDEX idx_procedure_visit_id ON procedure_occurrence (visit_occurrence_id ASC);
  
  CREATE INDEX  idx_drug_person_id  ON  drug_exposure  (person_id ASC);
  CLUSTER  drug_exposure  USING  idx_drug_person_id ;
  CREATE INDEX idx_drug_concept_id ON drug_exposure (drug_concept_id ASC);
  CREATE INDEX idx_drug_visit_id ON drug_exposure (visit_occurrence_id ASC);
  
  CREATE INDEX  idx_device_person_id  ON  device_exposure  (person_id ASC);
  CLUSTER  device_exposure  USING  idx_device_person_id ;
  CREATE INDEX idx_device_concept_id ON device_exposure (device_concept_id ASC);
  CREATE INDEX idx_device_visit_id ON device_exposure (visit_occurrence_id ASC);
  
  CREATE INDEX  idx_condition_person_id  ON  condition_occurrence  (person_id ASC);
  CLUSTER  condition_occurrence  USING  idx_condition_person_id ;
  CREATE INDEX idx_condition_concept_id ON condition_occurrence (condition_concept_id ASC);
  CREATE INDEX idx_condition_visit_id ON condition_occurrence (visit_occurrence_id ASC);
  
  CREATE INDEX  idx_measurement_person_id  ON  measurement  (person_id ASC);
  CLUSTER  measurement  USING  idx_measurement_person_id ;
  CREATE INDEX idx_measurement_concept_id ON measurement (measurement_concept_id ASC);
  CREATE INDEX idx_measurement_visit_id ON measurement (visit_occurrence_id ASC);
  
  CREATE INDEX  idx_note_person_id  ON  note  (person_id ASC);
  CLUSTER  note  USING  idx_note_person_id ;
  CREATE INDEX idx_note_concept_id ON note (note_type_concept_id ASC);
  CREATE INDEX idx_note_visit_id ON note (visit_occurrence_id ASC);
  
  CREATE INDEX  idx_observation_person_id  ON  observation  (person_id ASC);
  CLUSTER  observation  USING  idx_observation_person_id ;
  CREATE INDEX idx_observation_concept_id ON observation (observation_concept_id ASC);
  CREATE INDEX idx_observation_visit_id ON observation (visit_occurrence_id ASC);
  
  CREATE INDEX idx_fact_relationship_id_1 ON fact_relationship (domain_concept_id_1 ASC);
  CREATE INDEX idx_fact_relationship_id_2 ON fact_relationship (domain_concept_id_2 ASC);
  CREATE INDEX idx_fact_relationship_id_3 ON fact_relationship (relationship_concept_id ASC);
  
  
  
  /************************
  
  Standardized health system data
  
  ************************/
  
  
  
  
  
  /************************
  
  Standardized health economics
  
  ************************/
  
  CREATE INDEX  idx_period_person_id  ON  payer_plan_period  (person_id ASC);
  CLUSTER  payer_plan_period  USING  idx_period_person_id ;
  
  
  
  
  
  /************************
  
  Standardized derived elements
  
  ************************/
  
  
  CREATE INDEX idx_cohort_subject_id ON cohort (subject_id ASC);
  CREATE INDEX idx_cohort_c_definition_id ON cohort (cohort_definition_id ASC);
  
  CREATE INDEX idx_ca_subject_id ON cohort_attribute (subject_id ASC);
  CREATE INDEX idx_ca_definition_id ON cohort_attribute (cohort_definition_id ASC);
  
  CREATE INDEX  idx_drug_era_person_id  ON  drug_era  (person_id ASC);
  CLUSTER  drug_era  USING  idx_drug_era_person_id ;
  CREATE INDEX idx_drug_era_concept_id ON drug_era (drug_concept_id ASC);
  
  CREATE INDEX  idx_dose_era_person_id  ON  dose_era  (person_id ASC);
  CLUSTER  dose_era  USING  idx_dose_era_person_id ;
  CREATE INDEX idx_dose_era_concept_id ON dose_era (drug_concept_id ASC);
  
  CREATE INDEX  idx_condition_era_person_id  ON  condition_era  (person_id ASC);
  CLUSTER  condition_era  USING  idx_condition_era_person_id ;
  CREATE INDEX idx_condition_era_concept_id ON condition_era (condition_concept_id ASC);
  
  
  /******
  Genomic Index
  ******/