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/**
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* Copyright (C) 2007 EDIT
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* European Distributed Institute of Taxonomy
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* http://www.e-taxonomy.eu
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*
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* The contents of this file are subject to the Mozilla Public License Version 1.1
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* See LICENSE.TXT at the top of this package for the full license terms.
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*/
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package eu.etaxonomy.cdm.database.update.v41_47;
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import java.util.ArrayList;
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import java.util.List;
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import org.apache.log4j.Logger;
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import eu.etaxonomy.cdm.database.update.ColumnAdder;
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import eu.etaxonomy.cdm.database.update.ColumnNameChanger;
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import eu.etaxonomy.cdm.database.update.ISchemaUpdater;
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import eu.etaxonomy.cdm.database.update.ISchemaUpdaterStep;
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import eu.etaxonomy.cdm.database.update.MnTableCreator;
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import eu.etaxonomy.cdm.database.update.SchemaUpdaterBase;
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import eu.etaxonomy.cdm.database.update.SimpleSchemaUpdaterStep;
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import eu.etaxonomy.cdm.database.update.TableCreator;
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import eu.etaxonomy.cdm.database.update.UniqueIndexDropper;
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import eu.etaxonomy.cdm.database.update.v40_41.SchemaUpdater_40_41;
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/**
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* @author a.mueller
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* @created 16.04.2016
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*/
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/**
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* @author a.mueller
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* @date 09.05.2017
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*
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*/
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public class SchemaUpdater_41_47 extends SchemaUpdaterBase {
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@SuppressWarnings("unused")
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private static final Logger logger = Logger.getLogger(SchemaUpdater_41_47.class);
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private static final String startSchemaVersion = "4.1.0.0.201607300000";
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private static final String endSchemaVersion = "4.7.0.0.201710040000";
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// ********************** FACTORY METHOD *************************************
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public static SchemaUpdater_41_47 NewInstance() {
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return new SchemaUpdater_41_47();
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}
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/**
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* @param startSchemaVersion
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* @param endSchemaVersion
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*/
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protected SchemaUpdater_41_47() {
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super(startSchemaVersion, endSchemaVersion);
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}
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@Override
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protected List<ISchemaUpdaterStep> getUpdaterList() {
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String stepName;
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String tableName;
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ISchemaUpdaterStep step;
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String newColumnName;
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List<ISchemaUpdaterStep> stepList = new ArrayList<>();
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//#6600 remove Unique indexes from Rights MN tables
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removeUniqueIndexForRights(stepList);
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//#6529
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//Extend WorkingSet to allow a more fine grained definiton of taxon set
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//min rank
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stepName = "Add minRank column";
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tableName = "WorkingSet";
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newColumnName = "minRank_id";
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String referencedTable = "DefinedTermBase";
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step = ColumnAdder.NewIntegerInstance(stepName, tableName, newColumnName, INCLUDE_AUDIT, !NOT_NULL, referencedTable);
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stepList.add(step);
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//max rank
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stepName = "Add maxRank column";
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tableName = "WorkingSet";
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newColumnName = "maxRank_id";
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referencedTable = "DefinedTermBase";
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step = ColumnAdder.NewIntegerInstance(stepName, tableName, newColumnName, INCLUDE_AUDIT, !NOT_NULL, referencedTable);
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stepList.add(step);
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//subtree filter
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stepName= "Add geo filter MN table to WorkingSet";
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String firstTableName = "WorkingSet";
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String secondTableAlias = "NamedArea";
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String secondTableName = "DefinedTermBase";
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String attributeName = "geoFilter";
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boolean isList = ! IS_LIST;
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step = MnTableCreator.NewMnInstance(stepName, firstTableName, null, secondTableName, secondTableAlias, attributeName, INCLUDE_AUDIT, isList, IS_M_TO_M);
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stepList.add(step);
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//subtree filter
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stepName= "Add subtree filter MN table to WorkingSet";
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firstTableName = "WorkingSet";
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secondTableName = "TaxonNode";
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secondTableAlias = null;
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attributeName = "taxonSubtreeFilter";
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isList = ! IS_LIST;
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step = MnTableCreator.NewMnInstance(stepName, firstTableName, null, secondTableName, secondTableAlias, attributeName, INCLUDE_AUDIT, isList, IS_M_TO_M);
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stepList.add(step);
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//#6258
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stepName = "Add Registration table";
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tableName = "Registration";
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String[] columnNames = new String[]{"identifier","specificIdentifier","registrationDate","status",
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"institution_id","name_id","submitter_id"};
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String[] referencedTables = new String[]{null, null, null, null,
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"AgentBase","TaxonNameBase","User"};
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String[] columnTypes = new String[]{"string_255","string_255","datetime","string_10","int","int","int"};
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step = TableCreator.NewAnnotatableInstance(stepName, tableName,
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columnNames, columnTypes, referencedTables, INCLUDE_AUDIT);
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stepList.add(step);
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//add blockedBy_id
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stepName= "Add blockedBy_id to Registration";
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firstTableName = "Registration";
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secondTableName = "Registration";
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attributeName = "blockedBy";
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isList = ! IS_LIST;
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step = MnTableCreator.NewMnInstance(stepName, firstTableName, null, secondTableName, null, attributeName, INCLUDE_AUDIT, isList, IS_M_TO_M);
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stepList.add(step);
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//add type designations
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stepName= "Add type designations to Registration";
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firstTableName = "Registration";
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String firstColumnName = "registrations";
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secondTableName = "TypeDesignationBase";
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attributeName = "typeDesignations";
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isList = false;
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step = MnTableCreator.NewMnInstance(stepName, firstTableName, null, firstColumnName, secondTableName, null, attributeName, INCLUDE_AUDIT, isList, IS_M_TO_M);
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stepList.add(step);
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//#5258
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//Add "accessed" to Reference
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stepName = "Add 'accessed' to Reference";
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tableName = "Reference";
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newColumnName = "accessed";
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step = ColumnAdder.NewDateTimeInstance(stepName, tableName, newColumnName, INCLUDE_AUDIT, !NOT_NULL);
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stepList.add(step);
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//#6618 Add structure column to DefinedTermBase (Character)
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stepName = "Add structure column to DefinedTermBase (Character)";
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tableName = "DefinedTermBase";
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newColumnName = "structure_id";
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referencedTable = "FeatureNode";
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step = ColumnAdder.NewIntegerInstance(stepName, tableName, newColumnName, INCLUDE_AUDIT, !NOT_NULL, referencedTable);
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stepList.add(step);
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//#6618 Add property column to DefinedTermBase (Character)
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stepName = "Add property column to DefinedTermBase (Character)";
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tableName = "DefinedTermBase";
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newColumnName = "property_id";
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referencedTable = "FeatureNode";
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step = ColumnAdder.NewIntegerInstance(stepName, tableName, newColumnName, INCLUDE_AUDIT, !NOT_NULL, referencedTable);
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stepList.add(step);
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//#6361 and children
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mergeTaxonName(stepList);
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//#6535 update termtype for CdmMetaData (int => string)
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updateTermTypeForCdmMetaDataPropertyName(stepList);
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//##6661 Add initials to agent base
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stepName = "Add initials to AgentBase";
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tableName = "AgentBase";
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newColumnName = "initials";
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int length = 50;
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step = ColumnAdder.NewStringInstance(stepName, tableName, newColumnName, length, INCLUDE_AUDIT);
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stepList.add(step);
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stepName = "Update initials and firstname";
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step = InitialsUpdater.NewInstance();
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stepList.add(step);
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//ModelUpdateResult
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//Remove termupdater and allow update only from version 4.0
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return stepList;
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}
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/**
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* @param stepList
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*/
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//#6600 remove Unique indexes from Rights MN tables
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private void removeUniqueIndexForRights(List<ISchemaUpdaterStep> stepList) {
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String tableName;
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ISchemaUpdaterStep step;
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tableName = "AgentBase_RightsInfo";
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String columnName = "rights_id";
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step = UniqueIndexDropper.NewInstance(tableName, columnName, !INCLUDE_AUDIT);
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stepList.add(step);
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tableName = "Classification_RightsInfo";
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columnName = "rights_id";
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step = UniqueIndexDropper.NewInstance(tableName, columnName, !INCLUDE_AUDIT);
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stepList.add(step);
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tableName = "Collection_RightsInfo";
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columnName = "rights_id";
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step = UniqueIndexDropper.NewInstance(tableName, columnName, !INCLUDE_AUDIT);
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stepList.add(step);
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tableName = "DefinedTermBase_RightsInfo";
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columnName = "rights_id";
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step = UniqueIndexDropper.NewInstance(tableName, columnName, !INCLUDE_AUDIT);
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stepList.add(step);
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tableName = "DescriptionBase_RightsInfo";
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columnName = "rights_id";
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step = UniqueIndexDropper.NewInstance(tableName, columnName, !INCLUDE_AUDIT);
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stepList.add(step);
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tableName = "FeatureTree_RightsInfo";
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columnName = "rights_id";
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step = UniqueIndexDropper.NewInstance(tableName, columnName, !INCLUDE_AUDIT);
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stepList.add(step);
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tableName = "Media_RightsInfo";
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columnName = "rights_id";
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step = UniqueIndexDropper.NewInstance(tableName, columnName, !INCLUDE_AUDIT);
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stepList.add(step);
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tableName = "PolytomousKey_RightsInfo";
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columnName = "rights_id";
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step = UniqueIndexDropper.NewInstance(tableName, columnName, !INCLUDE_AUDIT);
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stepList.add(step);
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tableName = "Reference_RightsInfo";
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columnName = "rights_id";
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step = UniqueIndexDropper.NewInstance(tableName, columnName, !INCLUDE_AUDIT);
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stepList.add(step);
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tableName = "SpecimenOrObservationBase_RightsInfo";
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columnName = "rights_id";
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step = UniqueIndexDropper.NewInstance(tableName, columnName, !INCLUDE_AUDIT);
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stepList.add(step);
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tableName = "TaxonBase_RightsInfo";
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columnName = "rights_id";
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step = UniqueIndexDropper.NewInstance(tableName, columnName, !INCLUDE_AUDIT);
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stepList.add(step);
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tableName = "TaxonNameBase_RightsInfo";
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columnName = "rights_id";
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step = UniqueIndexDropper.NewInstance(tableName, columnName, !INCLUDE_AUDIT);
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stepList.add(step);
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tableName = "TermVocabulary_RightsInfo";
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columnName = "rights_id";
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step = UniqueIndexDropper.NewInstance(tableName, columnName, !INCLUDE_AUDIT);
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stepList.add(step);
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}
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/**
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* #6535 update termtype for CdmMetaData (int => string)
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*/
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private void updateTermTypeForCdmMetaDataPropertyName(List<ISchemaUpdaterStep> stepList) {
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String stepName = "Rename CdmMetaData.propertyName column";
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String tableName = "CdmMetaData";
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String oldColumnName = "propertyName";
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String newColumnName = "propertyNameOld";
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ISchemaUpdaterStep step = ColumnNameChanger.NewIntegerInstance(stepName, tableName, oldColumnName, newColumnName, ! INCLUDE_AUDIT);
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stepList.add(step);
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//... create new column
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stepName = "Create new CdmMetaData.propertyName column";
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tableName = "CdmMetaData";
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newColumnName = "propertyName";
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step = ColumnAdder.NewStringInstance(stepName, tableName, newColumnName, 20, ! INCLUDE_AUDIT);
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stepList.add(step);
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updateSingleTermTypeForCdmMetaDataPropertyName(stepList, "SCHEMA_VERSION", 1 );
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updateSingleTermTypeForCdmMetaDataPropertyName(stepList, "TERM_VERSION", 2 );
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updateSingleTermTypeForCdmMetaDataPropertyName(stepList, "CREATED", 3 );
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updateSingleTermTypeForCdmMetaDataPropertyName(stepList, "CREATE_NOTE", 4 );
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updateSingleTermTypeForCdmMetaDataPropertyName(stepList, "INST_NAME", 5 );
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updateSingleTermTypeForCdmMetaDataPropertyName(stepList, "INST_ID", 6 );
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}
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/**
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* @param stepList
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* @param name
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* @param index
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*/
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private void updateSingleTermTypeForCdmMetaDataPropertyName(List<ISchemaUpdaterStep> stepList,
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String name, int index) {
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String stepName = "Update value for " + name;
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String query = "UPDATE @@CdmMetaData@@ SET propertyName = '"+name+"' WHERE propertyNameOld = "+index;
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ISchemaUpdaterStep step = SimpleSchemaUpdaterStep.NewNonAuditedInstance(stepName, query, -99);
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stepList.add(step);
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}
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/**
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* #6361 and children
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*/
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private void mergeTaxonName(List<ISchemaUpdaterStep> stepList) {
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//#6367 Add nameType column to TaxonNameBase
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String stepName = "Add nameType column to TaxonNameBase";
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String tableName = "TaxonNameBase";
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String newColumnName = "nameType";
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int length = 15;
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ISchemaUpdaterStep step = ColumnAdder.NewStringInstance(stepName, tableName, newColumnName, length, INCLUDE_AUDIT);
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stepList.add(step);
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//#6367 #6368
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updateNameTypes(stepList);
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}
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/**
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* #6367
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*/
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private void updateNameTypes(List<ISchemaUpdaterStep> stepList) {
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updateSingleNameType(stepList, "ViralName", "ICVCN");
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updateSingleNameType(stepList, "NonViralName", "NonViral");
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updateSingleNameType(stepList, "BotanicalName", "ICNAFP");
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updateSingleNameType(stepList, "ZoologicalName", "ICZN");
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updateSingleNameType(stepList, "CultivarPlantName", "ICNCP");
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updateSingleNameType(stepList, "BacterialName", "ICNB");
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}
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/**
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* @param uuid the uuid
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* @param oldSymbol
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* @param newSybol
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*/
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private void updateSingleNameType(List<ISchemaUpdaterStep> stepList,
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String dtype, String nameType) {
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String stepName = "Update nameType for " + dtype;
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String query = "UPDATE @@TaxonNameBase@@ tnb "
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+ " SET nameType = '" + nameType + "'"
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+ " WHERE dtype = '" + dtype + "'" ;
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SimpleSchemaUpdaterStep simpleStep = SimpleSchemaUpdaterStep.NewAuditedInstance(stepName, query, "TaxonNameBase", -99);
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stepList.add(simpleStep);
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}
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@Override
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public ISchemaUpdater getNextUpdater() {
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return null;
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}
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@Override
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public ISchemaUpdater getPreviousUpdater() {
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return SchemaUpdater_40_41.NewInstance();
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}
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}
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