/ - Diff - EDIT - EDIT Project Management

     /**
     * Copyright (C) 2017 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.caryophyllales;
     import java.io.File;
     import java.io.FileNotFoundException;
     import java.io.FileOutputStream;
     import java.io.IOException;
     import java.net.URI;
     import java.util.Map;
     import org.apache.log4j.Logger;
     import eu.etaxonomy.cdm.api.application.CdmApplicationController;
     import eu.etaxonomy.cdm.app.common.CdmDestinations;
     import eu.etaxonomy.cdm.app.util.TestDatabase;
     import eu.etaxonomy.cdm.database.DbSchemaValidation;
     import eu.etaxonomy.cdm.database.ICdmDataSource;
     import eu.etaxonomy.cdm.io.cdmLight.CdmLightExportConfigurator;
     import eu.etaxonomy.cdm.io.common.CdmDefaultExport;
     import eu.etaxonomy.cdm.io.common.ExportResult;
     import eu.etaxonomy.cdm.io.common.ExportResultType;
     /**
      * @author k.luther
      * @date 24.03.2017
+     *
      */
     public class CdmLightExportActivator {
     private static final ICdmDataSource cdmSource = CdmDestinations.cdm_local_caryophyllales_nepenthaceae();
         // Export:
         private static String exportFileName = "file://C://Users//k.luther//Documents//Caryophyllales//OutputModel";
         private static final Logger logger = Logger.getLogger(CdmLightExportActivator.class);
         private ExportResult invokeExport(ICdmDataSource sourceParam, URI uri) {
     //      String server = "localhost";
     //      String database = "EDITimport";
     //      String username = "edit";
     //      sourceParam = CdmDataSource.NewMySqlInstance(server, database, username, AccountStore.readOrStorePassword(server, database, username, null));
             CdmLightExportConfigurator cdmlightExportConfigurator = new CdmLightExportConfigurator(null);
             CdmDefaultExport<CdmLightExportConfigurator> cdmLightExport = new CdmDefaultExport<>();
             // invoke export
             logger.debug("Invoking OutputModel export");
             ExportResult result = cdmLightExport.invoke(cdmlightExportConfigurator);
             return result;
+        }
         public static String chooseFile(String[] args) {
             if(args == null) {
                 return null;
+            }
             for (String dest: args){
                 if (dest.endsWith(".xml")){
                     return args[0];
+                }
+            }
             return null;
+        }
         private CdmApplicationController initDb(ICdmDataSource db) {
             // Init source DB
             CdmApplicationController appCtrInit = TestDatabase.initDb(db, DbSchemaValidation.VALIDATE, false);
             return appCtrInit;
+        }
         // Load test data to DB
         private void loadTestData(CdmApplicationController appCtrInit) {
             TestDatabase.loadTestData("", appCtrInit);
+        }
         /**
          * @param args
          */
         public static void main(String[] args) {
             CdmLightExportActivator sc = new CdmLightExportActivator();
             ICdmDataSource source = CdmDestinations.chooseDestination(args) != null ? CdmDestinations.chooseDestination(args) : cdmSource;
           //  String file = chooseFile(args);
             try {
                 sc.initDb(source);  //does this make sense here (it starts the appControler even if it is not needed later
                 ExportResult result = sc.invokeExport(source, null);
                 if (result.getExportData().getType().equals(ExportResultType.MAP_BYTE_ARRAY)){
                     Map<String, byte[]> map = (Map<String, byte[]>)result.getExportData();
                     for (String key:map.keySet()){
                         byte[] data =map.get(key);
                         String fileEnding =".csv";
                         File myFile = new File(exportFileName+File.separator + key + fileEnding);
                         FileOutputStream stream = new FileOutputStream(myFile);
                         try {
                             stream.write(data);
                             stream.close();
                         } catch (IOException e) {
                             // TODO Auto-generated catch block
                             e.printStackTrace();
+                        }
+                    }
+                }
             } catch (FileNotFoundException e) {
                 // TODO Auto-generated catch block
                 e.printStackTrace();
+            }
+        }
+    }

     /**
     * Copyright (C) 2017 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.caryophyllales;
     import java.io.File;
     import java.io.FileNotFoundException;
     import java.io.FileOutputStream;
     import java.io.IOException;
     import java.net.URI;
     import java.util.Map;
     import org.apache.log4j.Logger;
     import eu.etaxonomy.cdm.api.application.CdmApplicationController;
     import eu.etaxonomy.cdm.app.common.CdmDestinations;
     import eu.etaxonomy.cdm.app.util.TestDatabase;
     import eu.etaxonomy.cdm.database.DbSchemaValidation;
     import eu.etaxonomy.cdm.database.ICdmDataSource;
     import eu.etaxonomy.cdm.io.cdmLight.CdmLightExportConfigurator;
     import eu.etaxonomy.cdm.io.common.CdmDefaultExport;
     import eu.etaxonomy.cdm.io.common.ExportResult;
     import eu.etaxonomy.cdm.io.common.ExportResultType;
     /**
      * @author k.luther
      * @date 24.03.2017
+     *
      */
     public class OutputmodelExportActivator {
     private static final ICdmDataSource cdmSource = CdmDestinations.cdm_local_caryophyllales_nepenthaceae();
         // Export:
         private static String exportFileName = "file://C://Users//k.luther//Documents//Caryophyllales//OutputModel";
         private static final Logger logger = Logger.getLogger(OutputmodelExportActivator.class);
         private ExportResult invokeExport(ICdmDataSource sourceParam, URI uri) {
     //      String server = "localhost";
     //      String database = "EDITimport";
     //      String username = "edit";
     //      sourceParam = CdmDataSource.NewMySqlInstance(server, database, username, AccountStore.readOrStorePassword(server, database, username, null));
             CdmLightExportConfigurator cdmlightExportConfigurator = new CdmLightExportConfigurator(null);
             CdmDefaultExport<CdmLightExportConfigurator> cdmLightExport = new CdmDefaultExport<>();
             // invoke export
             logger.debug("Invoking OutputModel export");
             ExportResult result = cdmLightExport.invoke(cdmlightExportConfigurator);
             return result;
+        }
         public static String chooseFile(String[] args) {
             if(args == null) {
                 return null;
+            }
             for (String dest: args){
                 if (dest.endsWith(".xml")){
                     return args[0];
+                }
+            }
             return null;
+        }
         private CdmApplicationController initDb(ICdmDataSource db) {
             // Init source DB
             CdmApplicationController appCtrInit = TestDatabase.initDb(db, DbSchemaValidation.VALIDATE, false);
             return appCtrInit;
+        }
         // Load test data to DB
         private void loadTestData(CdmApplicationController appCtrInit) {
             TestDatabase.loadTestData("", appCtrInit);
+        }
         /**
          * @param args
          */
         public static void main(String[] args) {
             OutputmodelExportActivator sc = new OutputmodelExportActivator();
             ICdmDataSource source = CdmDestinations.chooseDestination(args) != null ? CdmDestinations.chooseDestination(args) : cdmSource;
           //  String file = chooseFile(args);
             try {
                 sc.initDb(source);  //does this make sense here (it starts the appControler even if it is not needed later
                 ExportResult result = sc.invokeExport(source, null);
                 if (result.getExportData().getType().equals(ExportResultType.MAP_BYTE_ARRAY)){
                     Map<String, byte[]> map = (Map<String, byte[]>)result.getExportData();
                     for (String key:map.keySet()){
                         byte[] data =map.get(key);
                         String fileEnding =".csv";
                         File myFile = new File(exportFileName+File.separator + key + fileEnding);
                         FileOutputStream stream = new FileOutputStream(myFile);
                         try {
                             stream.write(data);
                             stream.close();
                         } catch (IOException e) {
                             // TODO Auto-generated catch block
                             e.printStackTrace();
+                        }
+                    }
+                }
             } catch (FileNotFoundException e) {
                 // TODO Auto-generated catch block
                 e.printStackTrace();
+            }
+        }
+    }

     import eu.etaxonomy.cdm.model.name.NomenclaturalCode;
     public class TaxonExcelCaryophyllalesActivator {
-...
     	    	//export.invoke(csvNameExportConfigurator.getNewState());
     	    	CdmDefaultExport<CsvNameExportConfigurator> normalExplicitImport =
     				new CdmDefaultExport<CsvNameExportConfigurator>();
     				new CdmDefaultExport<>();
     			// invoke import
     			//logger.debug("Invoking Normal Explicit Excel import");

     /**
     * Copyright (C) 2007 EDIT
     * European Distributed Institute of Taxonomy
     * 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.
     */
-...
     import eu.etaxonomy.cdm.app.sdd.SDDSources;
     /**
      * @author a.mueller
      * @created 20.06.2008
      * @version 1.0
      * @author k.luther
      * @created May 2014
      */
     public class TcsSources {
     	private static final Logger logger = Logger.getLogger(TcsSources.class);
     	public static URI normalExplicit(){
     		try {
     //			URL url = new File(("C:\\localCopy\\eclipse\\cdmlib\\trunk\\app-import\\src\\main\\resources\\excel\\NormalExplicit.xls")).toURL();
     			// FIXME what is this????
     			URL url = new File("D:\\NormalExplicit.xls").toURI().toURL();
     //			URL url = new TcsSources().getClass().getResource("excel/NormalExplicit.xls");
     			boolean exists = new File(url.getFile()).exists();
     			if (! exists) throw new RuntimeException("File not found: " + url);
     			if (! exists) {
                     throw new RuntimeException("File not found: " + url);
+                }
     			URI uri = url.toURI();
     			return uri;
     		} catch (MalformedURLException e1) {
-...
+    		}
+    	}
     	public static String arecaceae(){
     		//	Monocots rdf
     		String sourceUrl = "http://dev.e-taxonomy.eu/trac/attachment/wiki/SampleDataConversion/Monocotyledonae/arecaceae.rdf?format=raw";
     		logger.debug("TcsSource " +  sourceUrl);
     		return sourceUrl;
+    	}
     	public static String taxonX_local(){
     		//		Monocots rdf
     		//String sourceUrl = "file:C:/localCopy/eclipse/cdmlib/app-import/src/main/resources/palm_tn_29336.xml";
-...
     		File sourceDir = new File("target/classes/taxonX/"); //palm_tc_14495.xml
     		return sourceDir;
+    	}
     	public static String arecaceae_local(){
     		//		Monocots rdf
     		//String sourceUrl = "file:C:/localCopy/eclipse/cdmlib/app-import/src/main/resources/arecaceae.rdf";
     		URL url = new SDDSources().getClass().getResource("/arecaceae.rdf");
     		String sourceUrl = url.toString();
     		return sourceUrl;
+    	}
-...
     		//		tcsXmlTest.xml
     		URL url = new TcsSources().getClass().getResource("/tcs/Cichorium_tcs.xml");
     		String sourceUrl = url.toString();
     		return sourceUrl;
     		return sourceUrl;
+    	}
     	public static String tcsXml_nyctaginaceae(){
-...
     		} catch (MalformedURLException e) {
     			throw new RuntimeException(e);
+    		}
+    	}
     	public static String tcsXml_localPath(){
     		File file = new File("C:\\localCopy\\Data\\tdwg\\Cichorium_tcs.xml");
     		String sourceUrl;
-...
     			throw new RuntimeException(e);
+    		}
     		return sourceUrl;
+    	}
+    	}
     	public static String tcsXmlTest_local2(){
     		//		tcsXmlTest.xml
     		URL url = new TcsSources().getClass().getResource("/TcsXmlImportConfiguratorTest-input.xml");
     		String sourceUrl = url.toString();
     		return sourceUrl;
     		return sourceUrl;
+    	}
     	public static String tcsRdf_globis(){
     		//		globis.rdf.xml
     		//String sourceUrl = "file:C:/Dokumente und Einstellungen/a.kohlbecker.BGBM/Desktop/globis.rdf.xml";
-...
     		URL resourceUrl = new TcsSources().getClass().getResource(sourceUrl);
     		logger.debug("TcsRdfSource " +  resourceUrl.toString());
     		return resourceUrl.toString();
+    	}
+    	}
+    }

     /**
     * Copyright (C) 2007 EDIT
     * European Distributed Institute of Taxonomy
     * 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.
     */
-...
     /**
      * @author a.mueller
      * @created 20.06.2008
      * @version 1.0
      * @author k.luther
      * @created Jun 2015
      */
     public class XlsSources {
     	private static final Logger logger = Logger.getLogger(XlsSources.class);
     	@SuppressWarnings("unused")
         private static final Logger logger = Logger.getLogger(XlsSources.class);
     	public static URI normalExplicit(){
     		try {
     //			URL url = new File(("C:\\localCopy\\eclipse\\cdmlib\\trunk\\app-import\\src\\main\\resources\\excel\\NormalExplicit.xls")).toURL();
     			// FIXME what is this????
     			URL url = new File("D:\\NormalExplicit.xls").toURI().toURL();
     //			URL url = new TcsSources().getClass().getResource("excel/NormalExplicit.xls");
     			boolean exists = new File(url.getFile()).exists();
     			if (! exists) throw new RuntimeException("File not found: " + url);
     			if (! exists) {
                     throw new RuntimeException("File not found: " + url);
+                }
     			URI uri = url.toURI();
     			return uri;
     		} catch (MalformedURLException e1) {
-...
+    		}
+    	}
     	public static String xls_nyctaginaceae(){
     		try {
     			File file = new File("C:\\Users\\k.luther\\Documents\\Caryophyllales\\Arenaria_ThePlantList.xls");
-...
     		} catch (MalformedURLException e) {
     			throw new RuntimeException(e);
+    		}
+    	}
+    }

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Revision dbffc954

Added by Andreas Müller about 6 years ago