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.io.File;

import java.net.URI;

import java.util.UUID;

import org.apache.log4j.Logger;

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.events.LoggingIoObserver;

import eu.etaxonomy.cdm.io.dwca.in.DwcaDataImportConfiguratorBase.DatasetUse;

import eu.etaxonomy.cdm.io.dwca.in.DwcaImportConfigurator;

import eu.etaxonomy.cdm.io.dwca.in.IImportMapping.MappingType;

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

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

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

/**

 * @author a.mueller

 * @created 03.04.2012

 * @version 1.0

 */

public class DwcaScratchpadImportActivator {

	@SuppressWarnings("unused")

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

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

	static DbSchemaValidation hbm2dll = DbSchemaValidation.UPDATE;//UPDATE;//CREATE;//UPDATE;

	//	static final URI source =  dwca_emonocots_dioscoreaceae();

//	static final URI source =  dwca_emonocots_zingiberaceae();

	//static final URI source =  dwca_emonocots_cypripedioideae();

	static final URI source =  null;//dwca_antkey();//dwca_emonocots_dioscoreaceae();

//	static final ICdmDataSource cdmDestination = CdmDestinations.localH2();

	static final ICdmDataSource cdmDestination = CdmDestinations.cdm_test_local_mysql();

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

	//default nom code is ICZN as it allows adding publication year

	static final NomenclaturalCode defaultNomCode = NomenclaturalCode.ICNAFP;

	//classification Name

	static String classificationName = "Default classification";

	//title

	static final String title = "Scratchpad test import";

	//check - import

	static final CHECK check = CHECK.IMPORT_WITHOUT_CHECK;

	static int partitionSize = 1000;

	//config

	static DatasetUse datasetUse = DatasetUse.CLASSIFICATION;

	//validate

	static boolean validateRankConsistency = false;

	//taxa

	static final boolean doTaxa = true;

	static final boolean doDistribution = true;

	static final MappingType mappingType = MappingType.InMemoryMapping;

	//classification

	static final UUID classificationUuid = UUID.fromString("d9d199b6-eaf4-47c8-a732-0639bc445c56");

	//config

	static boolean scientificNameIdAsOriginalSourceId = true;

	static boolean guessNomRef = false;

	private boolean handleAllRefsAsCitation = false;

	private static final boolean useSourceReferenceAsSec = true;

	//deduplicate

	static final boolean doDeduplicate = false;

	protected void doImport(URI source, ICdmDataSource cdmDestination, UUID classificationUuid, String title, DbSchemaValidation hbm2dll){

		//make Source

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

		config.addObserver(new LoggingIoObserver());

		config.setClassificationUuid(classificationUuid);

		config.setCheck(check);

		config.setDbSchemaValidation(hbm2dll);

		config.setMappingType(mappingType);

		config.setScientificNameIdAsOriginalSourceId(scientificNameIdAsOriginalSourceId);

		config.setValidateRankConsistency(validateRankConsistency);

		config.setDefaultPartitionSize(partitionSize);

		config.setNomenclaturalCode(defaultNomCode);

		config.setDatasetUse(datasetUse);

		config.setGuessNomenclaturalReferences(guessNomRef);

		config.setHandleAllRefsAsCitation(handleAllRefsAsCitation);

		config.setUseSourceReferenceAsSec(useSourceReferenceAsSec);

		config.setSourceReferenceTitle(classificationName);//title);

		config.setClassificationName(classificationName);

		config.setUseSourceReferenceAsSec(true);//Lorna: what shall we use as sec reference for Scratchpads data?

		CdmDefaultImport myImport = new CdmDefaultImport();

		//...

		if (true){

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

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

			myImport.invoke(config);

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

		}

	}

	private Reference getSourceReference(String string) {

		Reference result = ReferenceFactory.newGeneric();

		result.setTitleCache(string, true);

		return result;

	}

	//Dwca

	public static URI dwca_emonocots_local() {

		URI sourceUrl = URI.create("file:///C:/localCopy/Data/dwca/import/Scratchpads/dwca_dioscoreaceae_emonocots.zip");

		return sourceUrl;

	}

	//emonocots_dioscoreaceae

	public static URI dwca_emonocots_dioscoreaceae() {

		//URI sourceUrl = URI.create("file:////PESIIMPORT3/vibrant/dwca/dwca_emonocots_dioscoreaceae.zip");//dwca_dioscoreaceae_e_monocot.zip

		URI sourceUrl = URI.create("file:///C:/Users/l.morris/Downloads/dwca_scratchpads/dwca_dioscoreaceae_e_monocot_org.zip");

		return sourceUrl;

	}

	//dwca_antkey_org.zip

	public static URI dwca_antkey() {

		//URI sourceUrl = URI.create("file:////PESIIMPORT3/vibrant/dwca/dwca_emonocots_dioscoreaceae.zip");//dwca_dioscoreaceae_e_monocot.zip

		URI sourceUrl = URI.create("file:///C:/Users/l.morris/Downloads/amaryllidaceae.zip");//antkey.zip");//alismataceae.zip");//hypoxidaceae.zip");//dwca_antkey.zip");

		return sourceUrl;

	}

	//emonocots_zingiberaceae

	public static URI dwca_emonocots_zingiberaceae() {

		URI sourceUrl = URI.create("file:////PESIIMPORT3/vibrant/dwca/dwca_emonocots_zingiberaceae.zip");

		return sourceUrl;

	}

	//emonocots_cypripedioideae

	public static URI dwca_emonocots_cypripedioideae() {

		//URI sourceUrl = URI.create("file:////PESIIMPORT3/vibrant/dwca/dwca_emonocots_cypripedioideae.zip");

		URI sourceUrl = URI.create("file:///C:/Users/l.morris/Downloads/dwca_scratchpads/dwca_cypripedioideae_e-monocot_org.zip");

		return sourceUrl;

	}

	/**

	 * @param args

	 */

	public static void main(String[] args) {

		DwcaScratchpadImportActivator me = new DwcaScratchpadImportActivator();

		//lorna: TODO get the classification name from the dwca zip file name

		classificationName = "Scratchpad classification";//"Amaryllidaceae";

		// Directory path here

		String path = "C:/Users/l.morris/Downloads/dwca_scratchpads/nine";

		URI sourceUrl;

		//URI sourceUrl = URI.create("file:////PESIIMPORT3/vibrant/dwca/dwca_emonocots_zingiberaceae.zip");

		String zipFile;

		File folder = new File(path);

		File[] listOfFiles = folder.listFiles();

		for (int i = 0; i < listOfFiles.length; i++)

		{

			if (listOfFiles[i].isFile())

			{

				zipFile = listOfFiles[i].getName();

				if (zipFile.endsWith(".zip"))

				{

					//classificationName = zipFile.split(".zip")[0];

					classificationName = zipFile.split("dwca_")[1];

					classificationName = classificationName.split("_")[0];

					System.out.println(classificationName);

					//start the Scratchpad name with uppercase.

					char[] stringArray = classificationName.toCharArray();

					stringArray[0] = Character.toUpperCase(stringArray[0]);

					classificationName = new String(stringArray) + " (Scratchpads)";

					System.out.println(classificationName);

					//System.exit(999);

					sourceUrl = URI.create("file:///" + path + "/" + zipFile);

					System.out.println(sourceUrl);

					me.doImport(sourceUrl, cdmDestination, classificationUuid, title, hbm2dll);

					//System.exit(999);

				}

			}

		}

		//System.exit(999);

		//list all files in the directory

		//get the URI of each

		//URI sourceUrl = URI.create("file:///C:/Users/l.morris/Downloads/amaryllidaceae.zip");

		//Lorna iterate through the dwca directly getting each dwca.zip and generate a URI for each source

		//me.doImport(source, cdmDestination, classificationUuid, title, hbm2dll);

	}

}