Add initial migration script to include TCR tables & custom query tab…

…les (#2462)

* add initial migration script to include TCR tables & cutom query tables

* update query columns to be correct ones

* create primary and foreign key indexes

containers/tefca-viewer/migrations/V01_01__tcr_custom_query_schema.sql

@@ -0,0 +1,107 @@
+BEGIN;
+CREATE EXTENSION IF NOT EXISTS "uuid-ossp";
+
+CREATE TABLE IF NOT EXISTS conditions (
+ id TEXT PRIMARY KEY,
+ system TEXT,
+ name TEXT,
+ version TEXT
+);
+
+CREATE TABLE IF NOT EXISTS valuesets (
+ id TEXT PRIMARY KEY,
+ oid TEXT,
+ version TEXT,
+ name TEXT,
+ author TEXT,
+ type TEXT
+);
+
+CREATE TABLE IF NOT EXISTS concepts (
+ id TEXT PRIMARY KEY,
+ code TEXT,
+ code_system TEXT,
+ display TEXT,
+ gem_formatted_code TEXT,
+ version TEXT
+);
+
+CREATE TABLE IF NOT EXISTS condition_to_valueset (
+ id TEXT PRIMARY KEY,
+ condition_id TEXT,
+ valueset_id TEXT,
+ source TEXT,
+ FOREIGN KEY (condition_id) REFERENCES conditions(id),
+ FOREIGN KEY (valueset_id) REFERENCES valuesets(id)
+);
+
+CREATE TABLE IF NOT EXISTS valueset_to_concept (
+ id TEXT PRIMARY KEY,
+ valueset_id TEXT,
+ concept_id TEXT,
+ FOREIGN KEY (valueset_id) REFERENCES valuesets(id),
+ FOREIGN KEY (concept_id) REFERENCES concepts(id)
+);
+
+CREATE TABLE IF NOT EXISTS icd_crosswalk (
+ id TEXT PRIMARY KEY,
+ icd10_code TEXT,
+ icd9_code TEXT,
+ match_flags TEXT);
+
+
+CREATE TABLE IF NOT EXISTS query (
+ id UUID DEFAULT uuid_generate_v4 (),
+ author VARCHAR(255),
+ date_created TIMESTAMP,
+ date_last_modified TIMESTAMP,
+ time_window_number INT,
+ time_window_unit VARCHAR(80),
+ PRIMARY KEY (id));
+
+CREATE TABLE IF NOT EXISTS query_to_valueset (
+ id TEXT PRIMARY KEY,
+ query_id UUID,
+ valueset_id TEXT,
+ FOREIGN KEY (query_id) REFERENCES query(query_id),
+ FOREIGN KEY (valueset_id) REFERENCES valuesets(id)
+);
+
+CREATE TABLE IF NOT EXISTS query_included_concepts (
+ id TEXT PRIMARY KEY,
+ query_by_valueset_id TEXT,
+ concept_id TEXT,
+ include BOOLEAN,
+ FOREIGN KEY (query_by_valueset_id) REFERENCES query_to_valueset(id),
+ FOREIGN KEY (concept_id) REFERENCES concepts(id)
+);
+
+-- Create indexes for all primary and foreign keys
+
+CREATE INDEX IF NOT EXISTS conditions_id_index ON conditions (id);
+
+CREATE INDEX IF NOT EXISTS valuesets_id_index ON valuesets (id);
+
+CREATE INDEX IF NOT EXISTS concepts_id_index ON concepts (id);
+
+CREATE INDEX IF NOT EXISTS condition_to_valueset_id_index ON condition_to_valueset (id);
+CREATE INDEX IF NOT EXISTS condition_to_valueset_condition_id_index ON condition_to_valueset (condition_id);
+CREATE INDEX IF NOT EXISTS condition_to_valueset_valueset_id_index ON condition_to_valueset (valueset_id);
+
+CREATE INDEX IF NOT EXISTS valueset_to_concept_id_index ON valueset_to_concept (id);
+CREATE INDEX IF NOT EXISTS valueset_to_concept_valueset_id_index ON valueset_to_concept (valueset_id);
+CREATE INDEX IF NOT EXISTS valueset_to_concept_concept_id_index ON valueset_to_concept (concept_id);
+
+CREATE INDEX IF NOT EXISTS icd_crosswalk_id_index ON icd_crosswalk (id);
+
+CREATE INDEX IF NOT EXISTS query_id_index ON query (id);
+
+CREATE INDEX IF NOT EXISTS query_to_valueset_id_index ON query_to_valueset (id);
+CREATE INDEX IF NOT EXISTS query_to_valueset_query_id_index ON query_to_valueset (query_id);
+CREATE INDEX IF NOT EXISTS query_to_valueset_valueset_id_index ON query_to_valueset (valueset_id);
+
+CREATE INDEX IF NOT EXISTS query_included_concepts_id_index ON query_included_concepts (id);
+CREATE INDEX IF NOT EXISTS query_included_concepts_query_by_valueset_id_index ON query_included_concepts (query_by_valueset_id);
+CREATE INDEX IF NOT EXISTS query_included_concepts_concept_id_index ON query_included_concepts (concept_id);
+
+COMMIT;