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.cyprus;

import java.net.URI;

import java.net.URISyntaxException;

import java.util.UUID;

import org.apache.log4j.Logger;

import eu.etaxonomy.cdm.api.application.ICdmRepository;

import eu.etaxonomy.cdm.api.service.ITermService;

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

import eu.etaxonomy.cdm.database.DbSchemaValidation;

import eu.etaxonomy.cdm.database.ICdmDataSource;

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

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

import eu.etaxonomy.cdm.io.common.mapping.IInputTransformer;

import eu.etaxonomy.cdm.io.common.mapping.UndefinedTransformerMethodException;

import eu.etaxonomy.cdm.io.cyprus.CyprusImportConfigurator;

import eu.etaxonomy.cdm.io.cyprus.CyprusTransformer;

import eu.etaxonomy.cdm.model.agent.Person;

import eu.etaxonomy.cdm.model.description.Feature;

import eu.etaxonomy.cdm.model.description.FeatureNode;

import eu.etaxonomy.cdm.model.description.FeatureTree;

import eu.etaxonomy.cdm.model.reference.Reference;

import eu.etaxonomy.cdm.model.reference.ReferenceFactory;

/**

 * @author a.mueller

 * @since 16.12.2010

 */

public class CyprusActivator {

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

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

	static DbSchemaValidation hbm2dll = DbSchemaValidation.CREATE;

//	static final URI source = cyprus_distribution();

	static final URI source = cyprus_local();

	static final ICdmDataSource cdmDestination = CdmDestinations.localH2();

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

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

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

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

	//feature tree uuid

	public static final UUID featureTreeUuid = UUID.fromString("14d1e912-5ec2-4d10-878b-828788b70a87");

	//classification

	static final UUID classificationUuid = UUID.fromString("0c2b5d25-7b15-4401-8b51-dd4be0ee5cab");

	//check - import

	static final CHECK check = CHECK.IMPORT_WITHOUT_CHECK;

	//taxa

	static final boolean doTaxa = true;

	static final boolean doDeduplicate = false;

	static final boolean doDistribution = false;

	private void doImport(ICdmDataSource cdmDestination){

		//make Source

		CyprusImportConfigurator config= CyprusImportConfigurator.NewInstance(source, cdmDestination);

		config.setClassificationUuid(classificationUuid);

		config.setCheck(check);

		config.setDoDistribution(doDistribution);

		config.setDoTaxa(doTaxa);

		config.setDbSchemaValidation(hbm2dll);

		CdmDefaultImport myImport = new CdmDefaultImport();

		//...

		if (true){

			System.out.println("Start import from ("+ source.toString() + ") ...");

			config.setSourceReference(getSourceReference(config.getSourceReferenceTitle()));

			myImport.invoke(config);

			if (doTaxa){

				FeatureTree tree = makeFeatureNodes(myImport.getCdmAppController().getTermService());

				myImport.getCdmAppController().getFeatureTreeService().saveOrUpdate(tree);

			}

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

		}

		//deduplicate

		if (doDeduplicate){

			ICdmRepository app = myImport.getCdmAppController();

			int count = app.getAgentService().deduplicate(Person.class, null, null);

			logger.warn("Deduplicated " + count + " persons.");

//			count = app.getAgentService().deduplicate(Team.class, null, null);

//			logger.warn("Deduplicated " + count + " teams.");

			count = app.getReferenceService().deduplicate(Reference.class, null, null);

			logger.warn("Deduplicated " + count + " references.");

		}

	}

	private Reference getSourceReference(String string) {

		Reference result = ReferenceFactory.newGeneric();

		result.setTitleCache(string, true);

		return result;

	}

	private FeatureTree makeFeatureNodes(ITermService service){

		CyprusTransformer transformer = new CyprusTransformer();

		FeatureTree result = FeatureTree.NewInstance(featureTreeUuid);

		result.setTitleCache("Cyprus Feature Tree", true);

		FeatureNode root = result.getRoot();

		FeatureNode newNode;

		newNode = FeatureNode.NewInstance(Feature.STATUS());

		root.addChild(newNode);

		newNode = FeatureNode.NewInstance(Feature.DISTRIBUTION());

		root.addChild(newNode);

		newNode = FeatureNode.NewInstance(Feature.SYSTEMATICS());

		root.addChild(newNode);

		//user defined features

		String [] featureList = new String[]{"Red Book", "Endemism"};

		addFeataureNodesByStringList(featureList, root, transformer, service);

		return result;

	}

	//Cyprus

	public static URI cyprus_local() {

		URI sourceUrl;

		try {

			sourceUrl = new URI("file:/C:/localCopy/Data/zypern/Zypern.xls");

			return sourceUrl;

		} catch (URISyntaxException e) {

			e.printStackTrace();

			return null;

		}

	}

	//Cyprus distriution

	public static URI cyprus_distribution() {

		URI sourceUrl;

		try {

			sourceUrl = new URI("file:/C:/localCopy/Data/zypern/Zypern_distribution_RH_corr.xls");

			return sourceUrl;

		} catch (URISyntaxException e) {

			e.printStackTrace();

			return null;

		}

	}

	public void addFeataureNodesByStringList(String[] featureStringList, FeatureNode root, IInputTransformer transformer, ITermService termService){

		try {

			for (String featureString : featureStringList){

			UUID featureUuid;

			featureUuid = transformer.getFeatureUuid(featureString);

			Feature feature = (Feature)termService.find(featureUuid);

			if (feature != null){

				FeatureNode child = FeatureNode.NewInstance(feature);

				root.addChild(child);

			}

		}

		} catch (UndefinedTransformerMethodException e) {

			logger.error("getFeatureUuid is not implemented in transformer. Features could not be added");

		}

	}

	/**

	 * @param args

	 */

	public static void main(String[] args) {

		CyprusActivator me = new CyprusActivator();

		me.doImport(cdmDestination);

	}

}