EDIT

/**

* Copyright (C) 2007 EDIT

* European Distributed Institute of Taxonomy 

* http://www.e-taxonomy.eu

* 

* The contents of this file are subject to the Mozilla Public License Version 1.1

* See LICENSE.TXT at the top of this package for the full license terms.

*/

package eu.etaxonomy.cdm.app.vibrant;

import java.lang.reflect.Method;

import java.sql.ResultSet;

import java.sql.SQLException;

import java.util.UUID;

import org.apache.log4j.Logger;

import eu.etaxonomy.cdm.app.berlinModelImport.BerlinModelSources;

import eu.etaxonomy.cdm.app.common.CdmDestinations;

import eu.etaxonomy.cdm.database.DatabaseTypeEnum;

import eu.etaxonomy.cdm.database.DbSchemaValidation;

import eu.etaxonomy.cdm.database.ICdmDataSource;

import eu.etaxonomy.cdm.io.berlinModel.in.BerlinModelImportConfigurator;

import eu.etaxonomy.cdm.io.common.CdmDefaultImport;

import eu.etaxonomy.cdm.io.common.IImportConfigurator.CHECK;

import eu.etaxonomy.cdm.io.common.IImportConfigurator.DO_REFERENCES;

import eu.etaxonomy.cdm.io.common.IImportConfigurator.EDITOR;

import eu.etaxonomy.cdm.io.common.Source;

import eu.etaxonomy.cdm.model.common.ExtensionType;

import eu.etaxonomy.cdm.model.name.NomenclaturalCode;

import eu.etaxonomy.cdm.model.taxon.TaxonBase;

/**

 * TODO add the following to a wiki page:

 * HINT: If you are about to import into a mysql data base running under windows and if you wish to dump and restore the resulting data bas under another operation systen 

 * you must set the mysql system variable lower_case_table_names = 0 in order to create data base with table compatible names.

 * 

 * 

 * @author a.mueller

 *

 */

public class MclActivator {

	private static final Logger logger = Logger.getLogger(MclActivator.class);

	//database validation status (create, update, validate ...)

	static DbSchemaValidation hbm2dll = DbSchemaValidation.CREATE;

	static final Source berlinModelSource = BerlinModelSources.mcl();

	static final ICdmDataSource cdmDestination = VibrantActivator.cdm_test_local_vibrant();

//	static final ICdmDataSource cdmDestination = CdmDestinations.cdm_test_local_mysql();

	static final boolean useSingleClassification = true;

	static final int sourceSecId = 1272;

	static final UUID classificationUuid = UUID.fromString("ba6efd26-5b45-4ce6-915d-4f9576e0bf0a");

	static final UUID sourceRefUuid = UUID.fromString("ca8b25d6-e251-4d2b-8b45-142e1e6448f7");

	// set to zero for unlimited nameFacts

	static final int maximumNumberOfNameFacts = 0;

	static final int partitionSize = 5000;

	//check - import

	static final CHECK check = CHECK.CHECK_AND_IMPORT;

	//editor - import

	static final EDITOR editor = EDITOR.EDITOR_AS_EDITOR;

	//NomeclaturalCode

	static final NomenclaturalCode nomenclaturalCode = NomenclaturalCode.ICBN;

	//ignore null

	static final boolean ignoreNull = true;

	static boolean useClassification = true;

// **************** ALL *********************	

	//authors

	static final boolean doAuthors = true;

	//references

	static final DO_REFERENCES doReferences =  DO_REFERENCES.ALL;

	//names

	static final boolean doTaxonNames = true;

	static final boolean doRelNames = true;

	static final boolean doNameStatus = true;

	//taxa

	static final boolean doTaxa = true;

	static final boolean doRelTaxa = true;

	static final boolean doFacts = true;

// **************** SELECTED *********************

//	//authors

//	static final boolean doAuthors = false;

//	//references

//	static final DO_REFERENCES doReferences =  DO_REFERENCES.NONE;

//	//names

//	static final boolean doTaxonNames = false;

//	static final boolean doRelNames = false;

//	static final boolean doNameStatus = false;

//	

//	//taxa 

//	static final boolean doTaxa = false;

//	static final boolean doRelTaxa = true;

//	static final boolean doFacts = false;

// **********Always IGNORE:***********************************************

	//etc.

	static final boolean doUser = false;

	static final boolean doTypes = false;   //not available in MCL

	static final boolean doNameFacts = false;  //not available in MCL

	static final boolean doOccurences = false;     //not available in MCL

	static final boolean doCommonNames = false;   //not available in MCL

	static final boolean doMarker = false;   //not available in MCL

	public void importMcl (Source source, ICdmDataSource destination, DbSchemaValidation hbm2dll){

		System.out.println("Start import from BerlinModel("+ berlinModelSource.getDatabase() + ") to " + cdmDestination.getDatabase() + " ...");

		//make BerlinModel Source

		BerlinModelImportConfigurator config = BerlinModelImportConfigurator.NewInstance(source,  destination);

		try {

			Method makeUrlMethod = this.getClass().getDeclaredMethod("makeUrlForTaxon", TaxonBase.class, ResultSet.class);

			config.setMakeUrlForTaxon(makeUrlMethod);

		} catch (Exception e) {

			e.printStackTrace();

			return;

		}

		config.setClassificationUuid(classificationUuid);

		config.setSourceSecId(sourceSecId);

		config.setNomenclaturalCode(nomenclaturalCode);

		config.setIgnoreNull(ignoreNull);

		config.setDoAuthors(doAuthors);

		config.setDoReferences(doReferences);

		config.setDoTaxonNames(doTaxonNames);

		config.setDoRelNames(doRelNames);

		config.setDoNameStatus(doNameStatus);

		config.setDoTypes(doTypes);

		config.setDoNameFacts(doNameFacts);

		config.setUseClassification(useClassification);

		config.setSourceRefUuid(sourceRefUuid);

		config.setDoTaxa(doTaxa);

		config.setDoRelTaxa(doRelTaxa);

		config.setDoFacts(doFacts);

		config.setDoOccurrence(doOccurences);

		config.setDoCommonNames(doCommonNames);

		config.setDoMarker(doMarker);

		config.setDoUser(doUser);

		config.setEditor(editor);

		config.setDbSchemaValidation(hbm2dll);

		// maximum number of name facts to import

		config.setMaximumNumberOfNameFacts(maximumNumberOfNameFacts);

		config.setUseSingleClassification(useSingleClassification);

		config.setCheck(check);

		config.setEditor(editor);

		config.setRecordsPerTransaction(partitionSize);

		// invoke import

		CdmDefaultImport<BerlinModelImportConfigurator> bmImport = new CdmDefaultImport<BerlinModelImportConfigurator>();

		bmImport.invoke(config);

		System.out.println("End import from BerlinModel ("+ source.getDatabase() + ")...");

	}

	/**

	 * @param args

	 */

	public static void main(String[] args) {

		MclActivator importActivator = new MclActivator();

		Source source = berlinModelSource;

		ICdmDataSource cdmRepository = CdmDestinations.chooseDestination(args) != null ? CdmDestinations.chooseDestination(args) : cdmDestination;

		importActivator.importMcl(source, cdmRepository, hbm2dll);

	}

	public static ICdmDataSource cdm_test_local_mcl(){

		DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL;

		String cdmServer = "127.0.0.1";

		String cdmDB = "mcl"; 

		String cdmUserName = "root";

		return CdmDestinations.makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null);

	}

	private static final String URLbase = "http://ww2.bgbm.org/mcl/PTaxonDetail.asp?";

	public static Method makeUrlForTaxon(TaxonBase<?> taxon, ResultSet rs){

		Method result = null;

		ExtensionType urlExtensionType = ExtensionType.URL();

		int nameFk;

		try {

			nameFk = rs.getInt("PTNameFk");

		int refFkInt = rs.getInt("PTRefFk");

			if (nameFk != 0 && refFkInt != 0){

				String url = String.format(URLbase + "NameId=%s&PTRefFk=%s",nameFk, refFkInt);

				taxon.addExtension(url, urlExtensionType);

			}else{

				logger.warn("NameFk or refFkInt is 0. Can't create url");

			}

		} catch (SQLException e) {

			logger.warn("Exception when trying to access result set for url creation.");

		}

		return result;

	}

}