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/*
* _____________________________________________________________________________
*
* INAF - OATS National Institute for Astrophysics - Astronomical Observatory of
* Trieste INAF - IA2 Italian Center for Astronomical Archives
* _____________________________________________________________________________
*
* Copyright (C) 2016 Istituto Nazionale di Astrofisica
*
* This program is free software; you can redistribute it and/or modify it under
* the terms of the GNU General Public License Version 3 as published by the
* Free Software Foundation.
*
* This program is distributed in the hope that it will be useful, but WITHOUT
* ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
* FOR A PARTICULAR PURPOSE. See the GNU General Public License for more
* details.
*
* You should have received a copy of the GNU General Public License along with
* this program; if not, write to the Free Software Foundation, Inc., 51
* Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA.
*/
package it.inaf.oats.ia2.tapschemamanager.api;
import it.inaf.oats.ia2.tapschemamanager.api.contract.DatabaseType;
import it.inaf.oats.ia2.tapschemamanager.api.contract.Column;
import it.inaf.oats.ia2.tapschemamanager.api.contract.Key;
import it.inaf.oats.ia2.tapschemamanager.api.contract.KeyColumn;
import it.inaf.oats.ia2.tapschemamanager.api.contract.Schema;
import it.inaf.oats.ia2.tapschemamanager.api.contract.Status;
import it.inaf.oats.ia2.tapschemamanager.api.contract.Table;
import it.inaf.oats.ia2.tapschemamanager.api.contract.TapSchema;
import it.inaf.oats.ia2.tapschemamanager.api.contract.TapSchemaVersion;
import java.sql.PreparedStatement;
import java.sql.ResultSet;
import java.sql.SQLException;
import java.sql.Statement;
import java.util.ArrayList;
import java.util.List;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
* Utility class that contains static methods for interacting with databases.
* @author Sonia Zorba {@literal <zorba at oats.inaf.it>}
private static final Logger log = LoggerFactory.getLogger(Dao.class);
/**
* Creates the TAP_SCHEMA schema and its tables.
private static void createTapSchemaStructure(DatabaseType dbType, Connection conn, TapSchema tapSchema) throws SQLException {
String tapSchemaName = tapSchema.getName();
TapSchemaVersion version = tapSchema.getVersion();
if (dbType == DatabaseType.MYSQL) {
try (Statement statement = conn.createStatement()) {
/////////////////////////////////////
// CREATE DATABASE //
/////////////////////////////////////
String queryString = String.format("CREATE DATABASE IF NOT EXISTS `%s`", tapSchemaName);
log.debug("Executing query {}", queryString);
statement.executeUpdate(queryString);
StringBuilder querySb = new StringBuilder();
/////////////////////////////////////
// CREATE schemas TABLE //
/////////////////////////////////////
querySb.append("CREATE TABLE IF NOT EXISTS `");
querySb.append(tapSchemaName);
querySb.append("`.`schemas` (\n");
querySb.append("schema_name varchar(64),\n");
querySb.append("utype varchar(512) NULL,\n");
querySb.append("description varchar(512) NULL,\n");
if (TSMUtil.isIA2(version)) {
querySb.append("schemaID bigint,\n");
}
querySb.append("PRIMARY KEY (schema_name))");
queryString = querySb.toString();
log.debug("Creating \"schemas\" table");
log.debug("Executing query {}", queryString);
statement.executeUpdate(queryString);
/////////////////////////////////////
// CREATE tables TABLE //
/////////////////////////////////////
querySb = new StringBuilder();
querySb.append("CREATE TABLE IF NOT EXISTS `");
querySb.append(tapSchemaName);
querySb.append("`.tables (\n");
querySb.append("schema_name varchar(64),\n");
querySb.append("table_name varchar(128),\n");
querySb.append("table_type varchar(8),\n");
querySb.append("utype varchar(512) NULL,\n");
querySb.append("description varchar(512) NULL,\n");
if (TSMUtil.isIA2(version)) {
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querySb.append("tableID bigint,\n");
}
querySb.append("PRIMARY KEY (table_name),\n");
querySb.append("FOREIGN KEY (schema_name) REFERENCES `");
querySb.append(tapSchemaName);
querySb.append("`.`schemas` (schema_name))");
queryString = querySb.toString();
log.debug("Creating \"tables\" table");
log.debug("Executing query {}", queryString);
statement.executeUpdate(queryString);
/////////////////////////////////////
// CREATE columns TABLE //
/////////////////////////////////////
querySb = new StringBuilder();
querySb.append("CREATE TABLE IF NOT EXISTS `");
querySb.append(tapSchemaName);
querySb.append("`.columns (\n");
querySb.append("table_name varchar(128),\n");
querySb.append("column_name varchar(64),\n");
querySb.append("utype varchar(512) NULL,\n");
querySb.append("ucd varchar(64) NULL,\n");
querySb.append("unit varchar(64) NULL,\n");
querySb.append("description varchar(512) NULL,\n");
querySb.append("datatype varchar(64) NOT NULL,\n");
querySb.append("size integer NULL,\n");
querySb.append("principal integer NOT NULL,\n");
querySb.append("indexed integer NOT NULL,\n");
querySb.append("std integer NOT NULL,\n");
if (TSMUtil.isIA2(version)) {
querySb.append("columnID bigint,\n");
}
querySb.append("PRIMARY KEY (table_name, column_name),\n");
querySb.append("FOREIGN KEY (table_name) REFERENCES `");
querySb.append(tapSchemaName);
querySb.append("`.tables (table_name))");
queryString = querySb.toString();
log.debug("Creating \"columns\" table");
log.debug("Executing query {}", queryString);
statement.executeUpdate(queryString);
/////////////////////////////////////
// CREATE keys TABLE //
/////////////////////////////////////
querySb = new StringBuilder();
querySb.append("CREATE TABLE IF NOT EXISTS `");
querySb.append(tapSchemaName);
querySb.append("`.keys (\n");
querySb.append("key_id varchar(64),\n");
querySb.append("from_table varchar(128) NOT NULL,\n");
querySb.append("target_table varchar(128) NOT NULL,\n");
querySb.append("utype varchar(512) NULL,\n");
querySb.append("description varchar(512) NULL,\n");
if (TSMUtil.isIA2(version)) {
querySb.append("keyID bigint,\n");
}
querySb.append("PRIMARY KEY (key_id),\n");
querySb.append("FOREIGN KEY (from_table) REFERENCES `");
querySb.append(tapSchemaName);
querySb.append("`.tables (table_name),\n");
querySb.append("FOREIGN KEY (target_table) REFERENCES `");
querySb.append(tapSchemaName);
querySb.append("`.tables (table_name))");
queryString = querySb.toString();
log.debug("Creating \"keys\" table");
log.debug("Executing query {}", queryString);
statement.executeUpdate(queryString);
/////////////////////////////////////
// CREATE key_columns TABLE //
/////////////////////////////////////
querySb = new StringBuilder();
querySb.append("CREATE TABLE IF NOT EXISTS `");
querySb.append(tapSchemaName);
querySb.append("`.key_columns (\n");
querySb.append("key_id varchar(64),\n");
querySb.append("from_column varchar(64) NOT NULL,\n");
querySb.append("target_column varchar(64) NOT NULL,\n");
if (TSMUtil.isIA2(version)) {
querySb.append("key_columnID bigint,\n");
}
querySb.append("FOREIGN KEY (key_id) REFERENCES `");
querySb.append(tapSchemaName);
querySb.append("`.keys (key_id))");
queryString = querySb.toString();
log.debug("Creating \"key_columns\" table");
log.debug("Executing query {}", queryString);
statement.executeUpdate(queryString);
}
} else if (dbType == DatabaseType.POSTGRES) {
try (Statement statement = conn.createStatement()) {
String tapSchemaNameEscaped = TSMUtil.escapeName(tapSchemaName, dbType);
statement.executeUpdate("CREATE SCHEMA IF NOT EXISTS " + tapSchemaNameEscaped);
StringBuilder querySb = new StringBuilder();
/////////////////////////////////////
// CREATE schemas TABLE //
/////////////////////////////////////
querySb.append("CREATE TABLE IF NOT EXISTS ");
querySb.append(tapSchemaNameEscaped);
querySb.append(".schemas (\n");
querySb.append("schema_name character varying(64) NOT NULL,\n");
querySb.append("description character varying(512),\n");
if (TSMUtil.isIA2(version)) {
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querySb.append("schemaid bigint,\n");
}
querySb.append("utype character varying(512))");
String queryString = querySb.toString();
log.debug("Creating \"schemas\" table");
log.debug("Executing query {}", queryString);
int updateResult = statement.executeUpdate(queryString);
if (updateResult > 0) {
queryString = "ALTER TABLE ONLY schemas ADD CONSTRAINT schemas_pkey PRIMARY KEY (schema_name)";
log.debug("Adding constraints to \"schemas\" table");
log.debug("Executing query {}", queryString);
statement.executeUpdate(queryString);
}
/////////////////////////////////////
// CREATE tables TABLE //
/////////////////////////////////////
querySb = new StringBuilder();
querySb.append("CREATE TABLE IF NOT EXISTS ");
querySb.append(tapSchemaNameEscaped);
querySb.append(".tables (\n");
querySb.append("table_name character varying(128) NOT NULL,\n");
querySb.append("description character varying(512),\n");
querySb.append("schema_name character varying(64),\n");
if (TSMUtil.isIA2(version)) {
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querySb.append("tableid bigint,\n");
}
querySb.append("table_type character varying(8),\n");
querySb.append("utype character varying(512))");
queryString = querySb.toString();
log.debug("Creating \"tables\" table");
log.debug("Executing query {}", queryString);
updateResult = statement.executeUpdate(queryString);
if (updateResult > 0) {
log.debug("Adding constraints to \"tables\" table");
queryString = "ALTER TABLE ONLY tables ADD CONSTRAINT tables_pkey PRIMARY KEY (table_name)";
log.debug("Executing query {}", queryString);
statement.executeUpdate(queryString);
queryString = "ALTER TABLE ONLY tables ADD CONSTRAINT fk_tables_schema_name FOREIGN KEY (schema_name) REFERENCES schemas(schema_name)";
log.debug("Executing query {}", queryString);
statement.executeUpdate(queryString);
}
/////////////////////////////////////
// CREATE columns TABLE //
/////////////////////////////////////
querySb = new StringBuilder();
querySb.append("CREATE TABLE IF NOT EXISTS ");
querySb.append(tapSchemaNameEscaped);
querySb.append(".columns (\n");
querySb.append("table_name character varying(128) NOT NULL,\n");
querySb.append("column_name character varying(64) NOT NULL,\n");
if (TSMUtil.isIA2(version)) {
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querySb.append("columnid bigint,\n");
}
querySb.append("datatype character varying(64),\n");
querySb.append("description character varying(512),\n");
querySb.append("id integer,\n");
querySb.append("indexed boolean,\n");
querySb.append("principal boolean,\n");
querySb.append("size integer,\n");
querySb.append("std boolean,\n");
querySb.append("ucd character varying(64),\n");
querySb.append("unit character varying(64),\n");
querySb.append("utype character varying(512))");
queryString = querySb.toString();
log.debug("Creating \"columns\" table");
log.debug("Executing query {}", queryString);
updateResult = statement.executeUpdate(queryString);
if (updateResult > 0) {
log.debug("Adding constraints to \"columns\" table");
queryString = "ALTER TABLE ONLY columns ADD CONSTRAINT columns_pkey PRIMARY KEY (table_name, column_name)";
log.debug("Executing query {}", queryString);
statement.executeUpdate(queryString);
queryString = "ALTER TABLE ONLY columns ADD CONSTRAINT fk_columns_table_name FOREIGN KEY (table_name) REFERENCES tables(table_name)";
log.debug("Executing query {}", queryString);
statement.executeUpdate(queryString);
}
/////////////////////////////////////
// CREATE keys TABLE //
/////////////////////////////////////
querySb = new StringBuilder();
querySb.append("CREATE TABLE IF NOT EXISTS ");
querySb.append(tapSchemaNameEscaped);
querySb.append(".keys (\n");
querySb.append("key_id character varying(64) NOT NULL,\n");
querySb.append("description character varying(512),\n");
querySb.append("from_table character varying(128),\n");
if (TSMUtil.isIA2(version)) {
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querySb.append("keyid bigint,\n");
}
querySb.append("target_table character varying(128),\n");
querySb.append("utype character varying(512))");
queryString = querySb.toString();
log.debug("Creating \"keys\" table");
log.debug("Executing query {}", queryString);
updateResult = statement.executeUpdate(queryString);
if (updateResult > 0) {
log.debug("Adding constraints to \"keys\" table");
queryString = "ALTER TABLE ONLY keys ADD CONSTRAINT keys_pkey PRIMARY KEY (key_id)";
log.debug("Executing query {}", queryString);
statement.executeUpdate(queryString);
queryString = "ALTER TABLE ONLY keys ADD CONSTRAINT \"FK_keys_from_table\" FOREIGN KEY (from_table) REFERENCES tables(table_name)";
log.debug("Executing query {}", queryString);
statement.executeUpdate(queryString);
queryString = "ALTER TABLE ONLY keys ADD CONSTRAINT \"FK_keys_target_table\" FOREIGN KEY (target_table) REFERENCES tables(table_name)";
log.debug("Executing query {}", queryString);
statement.executeUpdate(queryString);
}
/////////////////////////////////////
// CREATE key_columns TABLE //
/////////////////////////////////////
querySb = new StringBuilder();
querySb.append("CREATE TABLE IF NOT EXISTS ");
querySb.append(tapSchemaNameEscaped);
querySb.append(".key_columns (\n");
querySb.append("from_column character varying(64) NOT NULL,\n");
querySb.append("target_column character varying(64) NOT NULL,\n");
if (TSMUtil.isIA2(version)) {
querySb.append("key_columnid bigint,\n");
}
querySb.append("key_id character varying(64) NOT NULL)");
queryString = querySb.toString();
log.debug("Creating \"key_columns\" table");
log.debug("Executing query {}", queryString);
updateResult = statement.executeUpdate(queryString);
if (updateResult > 0) {
log.debug("Adding constraints to \"key_columns\" table");
queryString = "ALTER TABLE ONLY key_columns ADD CONSTRAINT key_columns_pkey PRIMARY KEY (from_column, target_column, key_id)";
log.debug("Executing query {}", queryString);
statement.executeUpdate(queryString);
queryString = "ALTER TABLE ONLY key_columns ADD CONSTRAINT fk_key_columns_key_id FOREIGN KEY (key_id) REFERENCES keys(key_id)";
log.debug("Executing query {}", queryString);
statement.executeUpdate(queryString);
}
}
} else {
throw new UnsupportedOperationException("Database type " + dbType + " not supported");
}
}
protected static void save(DBWrapper dbWrapper, TapSchema tapSchema) throws SQLException {
log.debug("Saving TAP_SCHEMA");
DatabaseType dbType = dbWrapper.getTapSchemaDatabaseType();
DataSource dataSource = dbWrapper.getTapSchemaDataSource();
Connection connection = null;
PreparedStatement statement = null;
boolean transactionStarted = false;
try {
connection = dataSource.getConnection();
UpdateOperations operations = new UpdateOperations(tapSchema);
if (!tapSchema.exists()) {
createTapSchemaStructure(dbType, connection, tapSchema);
// Start update
connection.setAutoCommit(false); // start transaction
transactionStarted = true;
String tapSchemaNameEscaped = TSMUtil.escapeName(tapSchema.getName(), dbType);
// REMOVE ELEMENTS
if (tapSchema.exists()) {
for (Key key : operations.getKeysToRemove()) {
String keyId = key.getId();
String query = String.format("DELETE FROM %s.%s WHERE key_id = ?", tapSchemaNameEscaped, TSMUtil.escapeName("key_columns", dbType));
statement = connection.prepareStatement(query);
statement.setString(1, keyId);
log.debug("Executing query {} [key_id={}]", query, keyId);
statement.executeUpdate();
query = String.format("DELETE FROM %s.%s WHERE key_id = ?", tapSchemaNameEscaped, TSMUtil.escapeName("keys", dbType));
statement = connection.prepareStatement(query);
statement.setString(1, keyId);
log.debug("Executing query {} [key_id={}]", query, keyId);
statement.executeUpdate();
}
for (Column column : operations.getColumnsToRemove()) {
String query = String.format("DELETE FROM %s.%s WHERE table_name = ? AND column_name = ?", tapSchemaNameEscaped, TSMUtil.escapeName("columns", dbType));
statement = connection.prepareStatement(query);
String tableName = column.getTableCompleteName();
String columnName = column.getName();
statement.setString(1, tableName);
statement.setString(2, columnName);
log.debug("Executing query {} [table_name={}, column_name={}]", query, tableName, columnName);
statement.executeUpdate();
}
for (Table table : operations.getTablesToRemove()) {
String query = String.format("DELETE FROM %s.%s WHERE table_name = ?", tapSchemaNameEscaped, TSMUtil.escapeName("tables", dbType));
statement = connection.prepareStatement(query);
String tableCompleteName = table.getCompleteName();
statement.setString(1, tableCompleteName);
log.debug("Executing query {} [table_name={}]", query, tableCompleteName);
statement.executeUpdate();
}
for (Schema schema : operations.getSchemasToRemove()) {
String query = String.format("DELETE FROM %s.%s WHERE schema_name = ?", tapSchemaNameEscaped, TSMUtil.escapeName("schemas", dbType));
statement = connection.prepareStatement(query);
String schemaName = schema.getName();
statement.setString(1, schemaName);
log.debug("Executing query {} [schema_name={}]", query, schemaName);
statement.executeUpdate();
}
}
// INSERT ELEMENTS
if (!operations.getSchemasToAdd().isEmpty()) {
log.debug("Inserting {} new schemas", operations.getSchemasToAdd().size());
}
for (Schema schema : operations.getSchemasToAdd()) {
DaoSchema.insertNewSchema(dbType, connection, tapSchema, schema);
}
if (!operations.getTablesToAdd().isEmpty()) {
log.debug("Inserting {} new tables", operations.getTablesToAdd().size());
}
for (Table table : operations.getTablesToAdd()) {
DaoTable.insertNewTable(dbType, connection, tapSchema, table);
}
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if (!operations.getColumnsToAdd().isEmpty()) {
log.debug("Inserting {} new columns", operations.getColumnsToAdd().size());
}
for (Column column : operations.getColumnsToAdd()) {
DaoColumn.insertNewColumn(dbType, connection, tapSchema, column);
}
if (!operations.getKeysToAdd().isEmpty()) {
log.debug("Inserting {} new keys", operations.getKeysToAdd().size());
}
for (Key key : operations.getKeysToAdd()) {
// insert new keys and their key columns
DaoKey.insertNewKey(dbType, connection, tapSchema, key);
}
//UPDATE ELEMENTS
if (tapSchema.exists()) {
for (Key key : operations.getKeysToUpdate()) {
// update keys and their key columns
DaoKey.updateKey(dbType, connection, tapSchema, key);
}
for (Schema schema : operations.getSchemasToUpdate()) {
DaoSchema.updateSchema(dbType, connection, tapSchema, schema);
}
for (Table table : operations.getTablesToUpdate()) {
DaoTable.updateTable(dbType, connection, tapSchema, table);
}
for (Column column : operations.getColumnsToUpdate()) {
DaoColumn.updateColumn(dbType, connection, tapSchema, column);
}
}
connection.commit();
// Status cleanup after commit
// added
for (Key key : operations.getKeysToAdd()) {
key.save();
}
for (Schema schema : operations.getSchemasToAdd()) {
schema.save();
}
for (Table table : operations.getTablesToAdd()) {
table.save();
}
for (Column column : operations.getColumnsToAdd()) {
column.save();
}
// removed
for (Key key : operations.getKeysToRemove()) {
key.initProperty(Key.ID_KEY, null);
for (KeyColumn keyColumn : key.getKeyColumns()) {
keyColumn.initProperty(KeyColumn.KEY_ID_KEY, null);
}
}
for (Column column : operations.getColumnsToRemove()) {
column.setStatus(Status.LOADED);
}
for (Table table : operations.getTablesToRemove()) {
Schema schema = tapSchema.getChild(table.getSchemaName());
if (schema != null) {
((SchemaImpl) schema).cleanTable(table.getName());
}
}
for (Schema schema : operations.getSchemasToRemove()) {
((TapSchemaImpl) tapSchema).cleanSchema(schema.getName());
}
// updated
for (Key key : operations.getKeysToUpdate()) {
key.save();
}
for (Schema schema : operations.getSchemasToUpdate()) {
schema.save();
}
for (Table table : operations.getTablesToUpdate()) {
table.save();
}
for (Column column : operations.getColumnsToUpdate()) {
column.save();
}
} catch (SQLException e) {
log.error("Exception caught", e);
try {
if (connection != null && transactionStarted) {
log.debug("Executing rollback");
connection.rollback();
}
} catch (SQLException e2) {
log.error("Exception caught", e2);
}
throw e;
} finally {
if (connection != null) {
try {
if (statement != null) {
statement.close();
}
connection.close();
} catch (SQLException e2) {
log.error("Exception caught", e2);
}
}
}
}
public static List<String> getAllTAPSchemasNames(DBWrapper dbs) throws SQLException {
List<String> allSchemas = DaoSchema.getAllSchemasNames(dbs.getTapSchemaDataSource(), dbs.getTapSchemaDatabaseType());
return getAllTAPSchemasNames(dbs, allSchemas);
/**
* Retrieve the list of all TAP_SCHEMA schemas names contained in the
* TAP_SCHEMA <code>DataSource</code>.<br>
* TAP_SCHEMA schemas are selected simply checking if they contains the
* TAP_SCHEMA standard tables. Currently no check on columns is performed.
*
* @param allSchemas usually the TAP_SCHEMA schemas list is loaded together
* the list of all schemas, so this list is passed by parameter to avoid
* repeating the query twice.
*
* @return list of all TAP_SCHEMA schemas names alphabetically and case
* insensitively ordered.
*/
public static List<String> getAllTAPSchemasNames(DBWrapper dbs, List<String> allSchemas) throws SQLException {
List<String> allTAPSchemas = new ArrayList<>();
for (String schemaName : allSchemas) {
boolean schemas = false,
tables = false,
columns = false,
keys = false,
keyColumns = false;
DatabaseType dbType = dbs.getTapSchemaDatabaseType();
String query;
if (dbType == DatabaseType.MYSQL) {
query = "SHOW TABLES FROM `" + schemaName + "`";
} else if (dbType == DatabaseType.POSTGRES) {
query = "SELECT tablename FROM pg_catalog.pg_tables where schemaname = '" + schemaName + "'";
} else {
throw new UnsupportedOperationException("Database type " + dbType + " not supported");
}
log.debug("Executing query {}", query);
try (Connection connection = dbs.getTapSchemaConnection();
Statement statement = connection.createStatement();
ResultSet resultSet = statement.executeQuery(query)) {
while (resultSet.next()) {
String shortTableName = resultSet.getString(1);
if (null != shortTableName) {
switch (shortTableName) {
case "schemas":
schemas = true;
break;
case "tables":
tables = true;
break;
case "columns":
columns = true;
break;
case "keys":
keys = true;
break;
case "key_columns":
keyColumns = true;
break;
}
if (schemas && tables && columns && keys && keyColumns) {
// the schema is a TAP_SCHEMA
log.debug("{} TAP_SCHEMA schemas found", allTAPSchemas.size());
return TSMUtil.sortStringsList(allTAPSchemas);
/**
* Retrieve the list of the name of the schemas exposed by the TAP_SCHEMA
* specified by the <code>tapSchemaName</code> parameter.
*
* @return list of exposed schemas names alphabetically and case
* insensitively ordered.
*/
public static List<String> getExposedSchemas(DBWrapper dbs, String tapSchemaName) throws SQLException {
final List<String> exposedSchemas = new ArrayList<>();
DatabaseType dbType = dbs.getTapSchemaDatabaseType();
String query;
if (dbType == DatabaseType.MYSQL) {
query = "SELECT schema_name FROM `" + tapSchemaName + "`.`schemas`";
} else if (dbType == DatabaseType.POSTGRES) {
query = "SELECT schema_name FROM \"" + tapSchemaName + "\".\"schemas\"";
} else {
throw new UnsupportedOperationException("Database type " + dbType + " not supported");
}
log.debug("Executing query " + query);
try (Connection connection = dbs.getTapSchemaConnection();
Statement statement = connection.createStatement();
ResultSet resultSet = statement.executeQuery(query)) {
while (resultSet.next()) {
exposedSchemas.add(resultSet.getString(1));
}