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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.io.pesi.erms.validation;
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import java.sql.ResultSet;
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import java.sql.SQLException;
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import org.apache.log4j.Logger;
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import eu.etaxonomy.cdm.io.common.IOValidator;
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import eu.etaxonomy.cdm.io.common.Source;
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import eu.etaxonomy.cdm.io.pesi.erms.ErmsImportConfigurator;
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import eu.etaxonomy.cdm.io.pesi.erms.ErmsImportState;
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/**
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* @author a.mueller
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* @created 17.02.2010
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* @version 1.0
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*/
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public class ErmsTaxonImportValidator implements IOValidator<ErmsImportState>{
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private static final Logger logger = Logger.getLogger(ErmsTaxonImportValidator.class);
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public boolean validate(ErmsImportState state){
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boolean result = true;
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ErmsImportConfigurator config = state.getConfig();
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logger.info("Checking for Taxa not yet fully implemented");
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// result &= checkParentTaxonStatus(config);
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result &= checkAccParentTaxonStatus(config);
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result &= checkSynonymsAcceptedTaxonStatus(config);
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return result;
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}
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private boolean checkAccParentTaxonStatus(ErmsImportConfigurator bmiConfig){
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try {
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boolean result = true;
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Source source = bmiConfig.getSource();
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String strSQL =
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" SELECT myTaxon.id AS childId, childStatus.status_name AS childStatus, myTaxon.tu_status, " +
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" myTaxon.tu_displayname AS childDisplayName, parent.id AS parentId, parent.tu_status AS parentStatusId, parentStatus.status_name AS parentStatus, " +
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" parent.tu_displayname as parentName, parentAcc.id AS parentAccId, parentAccStatus.status_name AS parentAccStatus, parentAcc.tu_displayname AS parentAccName, " +
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" parentAcc.tu_status AS Expr1 " +
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" FROM status AS parentAccStatus INNER JOIN " +
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" tu AS parentAcc ON parentAccStatus.status_id = parentAcc.tu_status RIGHT OUTER JOIN " +
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" tu AS parent ON parentAcc.id = parent.tu_acctaxon RIGHT OUTER JOIN " +
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" tu AS myTaxon ON parent.id = myTaxon.tu_parent LEFT OUTER JOIN " +
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" status AS parentStatus ON parent.tu_status = parentStatus.status_id LEFT OUTER JOIN " +
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" status AS childStatus ON myTaxon.tu_status = childStatus.status_id " +
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" WHERE (myTaxon.tu_status = 1) AND (parent.tu_status <> 1) " +
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" ORDER BY parentStatusId";
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ResultSet rs = source.getResultSet(strSQL);
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boolean firstRow = true;
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int i = 0;
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while (rs.next()){
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i++;
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if (firstRow){
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System.out.println("========================================================");
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logger.warn("There are accepted taxa that have an unaccepted parent and also the parents accepted taxon (tu_acctaxon) is not accepted. ");
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System.out.println("========================================================");
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}
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int childId = rs.getInt("childId");
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String childName = rs.getString("childDisplayName");
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int parentId = rs.getInt("parentId");
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String parentName = rs.getString("parentName");
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String parentStatus = rs.getString("parentStatus");
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int accParentId = rs.getInt("parentAccId");
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String accParentName = rs.getString("parentAccName");
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String accParentStatus = rs.getString("parentAccStatus");
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System.out.println(
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"ChildId:" + childId + "\n childName: " + childName +
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"\n ParentId: " + parentId + "\n parentName: " + parentName + "\n parentStatus: " + parentStatus +
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"\n ParentAccId: " + accParentId + "\n accParentName: " + accParentName + "\n accParentStatus: " + accParentStatus );
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result = firstRow = false;
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}
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if (i > 0){
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System.out.println(" ");
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}
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return result;
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} catch (SQLException e) {
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e.printStackTrace();
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return false;
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}
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}
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private boolean checkSynonymsAcceptedTaxonStatus(ErmsImportConfigurator bmiConfig){
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try {
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boolean result = true;
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Source source = bmiConfig.getSource();
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String strSQL =
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" SELECT myTaxon.id AS synonymId, myTaxon.tu_displayname AS synonymName, synonymStatus.status_name AS synonymStatus, " +
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" accTaxon.id AS acceptedId, accTaxon.tu_displayname AS acceptedName, acceptedStatus.status_name AS acceptedStatus " +
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" FROM tu AS myTaxon INNER JOIN " +
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" tu AS accTaxon ON myTaxon.tu_acctaxon = accTaxon.id INNER JOIN " +
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" status AS synonymStatus ON myTaxon.tu_status = synonymStatus.status_id INNER JOIN " +
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" status AS acceptedStatus ON accTaxon.tu_status = acceptedStatus.status_id " +
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" WHERE (myTaxon.tu_status <> 1) AND (accTaxon.tu_status <> 1) " +
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" ORDER BY myTaxon.tu_status, accTaxon.tu_status ";
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ResultSet rs = source.getResultSet(strSQL);
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boolean firstRow = true;
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int i = 0;
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while (rs.next()){
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i++;
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if (firstRow){
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System.out.println("========================================================");
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logger.warn("There are accepted synonyms that have an unaccepted taxon that has no status 'accepted'. ");
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System.out.println("========================================================");
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}
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int synonymId = rs.getInt("synonymId");
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String synonymName = rs.getString("synonymName");
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String synonymStatus = rs.getString("synonymStatus");
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int acceptedId = rs.getInt("acceptedId");
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String acceptedName = rs.getString("acceptedName");
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String acceptedStatus = rs.getString("acceptedStatus");
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System.out.println(
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"SynonymId:" + synonymId + "\n synonymName: " + synonymName + "\n synonymStatus: " + synonymStatus +
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"\n AcceptedId: " + acceptedId + "\n acceptedName: " + acceptedName + "\n acceptedStatus: " + acceptedStatus
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// + "\n parentAccId: " + acceptedId + "\n accParentName: " + accParentName + "\n accParentStatus: " + accParentStatus
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);
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result = firstRow = false;
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}
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if (i > 0){
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System.out.println(" ");
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}
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return result;
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} catch (SQLException e) {
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e.printStackTrace();
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return false;
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}
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}
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}
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