Revision a4947270
Added by Andreas Müller over 7 years ago
| app-import/src/main/java/eu/etaxonomy/cdm/app/common/CdmDestinations.java | ||
|---|---|---|
| 398 | 398 |
} |
| 399 | 399 |
|
| 400 | 400 |
public static ICdmDataSource localH2(String database, String username, String filePath){
|
| 401 |
return CdmDataSource.NewH2EmbeddedInstance(database, "sa", "", filePath, null);
|
|
| 401 |
return CdmDataSource.NewH2EmbeddedInstance(database, "sa", "", filePath); |
|
| 402 | 402 |
} |
| 403 | 403 |
|
| 404 | 404 |
public static ICdmDataSource localH2Salvador(){
|
| ... | ... | |
| 634 | 634 |
pwd = AccountStore.readOrStorePassword(cdmServer, cdmDB, cdmUserName, pwd); |
| 635 | 635 |
ICdmDataSource destination; |
| 636 | 636 |
if(dbType.equals(DatabaseTypeEnum.MySQL)){
|
| 637 |
destination = CdmDataSource.NewMySqlInstance(cdmServer, cdmDB, port, cdmUserName, pwd, null);
|
|
| 637 |
destination = CdmDataSource.NewMySqlInstance(cdmServer, cdmDB, port, cdmUserName, pwd); |
|
| 638 | 638 |
} else if(dbType.equals(DatabaseTypeEnum.PostgreSQL)){
|
| 639 |
destination = CdmDataSource.NewPostgreSQLInstance(cdmServer, cdmDB, port, cdmUserName, pwd, null);
|
|
| 639 |
destination = CdmDataSource.NewPostgreSQLInstance(cdmServer, cdmDB, port, cdmUserName, pwd); |
|
| 640 | 640 |
} else {
|
| 641 | 641 |
//TODO others |
| 642 | 642 |
throw new RuntimeException("Unsupported DatabaseType");
|
| app-import/src/main/java/eu/etaxonomy/cdm/app/sdd/SDDExportActivator.java | ||
|---|---|---|
| 1 | 1 |
// $Id$ |
| 2 | 2 |
/** |
| 3 | 3 |
* Copyright (C) 2009 EDIT |
| 4 |
* European Distributed Institute of Taxonomy
|
|
| 4 |
* European Distributed Institute of Taxonomy |
|
| 5 | 5 |
* http://www.e-taxonomy.eu |
| 6 |
*
|
|
| 6 |
* |
|
| 7 | 7 |
* The contents of this file are subject to the Mozilla Public License Version 1.1 |
| 8 | 8 |
* See LICENSE.TXT at the top of this package for the full license terms. |
| 9 | 9 |
*/ |
| ... | ... | |
| 13 | 13 |
import java.net.MalformedURLException; |
| 14 | 14 |
import java.sql.SQLException; |
| 15 | 15 |
|
| 16 |
import junit.framework.Assert; |
|
| 17 |
|
|
| 18 | 16 |
import org.apache.log4j.Logger; |
| 19 | 17 |
|
| 20 | 18 |
import eu.etaxonomy.cdm.common.CdmUtils; |
| ... | ... | |
| 26 | 24 |
import eu.etaxonomy.cdm.io.common.CdmDefaultExport; |
| 27 | 25 |
import eu.etaxonomy.cdm.io.common.IExportConfigurator.DO_REFERENCES; |
| 28 | 26 |
import eu.etaxonomy.cdm.io.sdd.out.SDDExportConfigurator; |
| 29 |
import eu.etaxonomy.cdm.model.name.NomenclaturalCode;
|
|
| 27 |
import junit.framework.Assert;
|
|
| 30 | 28 |
|
| 31 | 29 |
/** |
| 32 | 30 |
* @author l.morris |
| ... | ... | |
| 42 | 40 |
//private static final String destinationFolder = "C:/tmp/viola/exports_SDD"; |
| 43 | 41 |
|
| 44 | 42 |
/** NUMBER_ROWS_TO_RETRIEVE = 0 is the default case to retrieve all rows. |
| 45 |
* For testing purposes: If NUMBER_ROWS_TO_RETRIEVE >0 then retrieve
|
|
| 46 |
* as many rows as specified for agents, references, etc.
|
|
| 43 |
* For testing purposes: If NUMBER_ROWS_TO_RETRIEVE >0 then retrieve |
|
| 44 |
* as many rows as specified for agents, references, etc. |
|
| 47 | 45 |
* Only root taxa and no synonyms and relationships are retrieved. */ |
| 48 | 46 |
private static final int NUMBER_ROWS_TO_RETRIEVE = 0; |
| 49 | 47 |
|
| ... | ... | |
| 56 | 54 |
ICdmDataSource datasource = CdmDataSource.NewH2EmbeddedInstance(dbname, username, ""); |
| 57 | 55 |
return datasource; |
| 58 | 56 |
} |
| 59 |
|
|
| 57 |
|
|
| 60 | 58 |
private static ICdmDataSource customDataSource() {
|
| 61 | 59 |
|
| 62 | 60 |
CdmPersistentDataSource loadedDataSource = null; |
| ... | ... | |
| 65 | 63 |
String dataSourceName = CdmUtils.readInputLine("Database name: ");
|
| 66 | 64 |
String username = CdmUtils.readInputLine("Username: ");
|
| 67 | 65 |
String password = CdmUtils.readInputLine("Password: ");
|
| 68 |
|
|
| 66 |
|
|
| 69 | 67 |
dataSourceName = (dataSourceName.equals("")) ? "cdm_test3" : dataSourceName;
|
| 70 | 68 |
username = (username.equals("")) ? "ljm" : username;
|
| 71 |
|
|
| 69 |
|
|
| 72 | 70 |
//ICdmDataSource dataSource = CdmDataSource.NewMySqlInstance("127.0.0.1", "cdm_test3", 3306, "ljm", password, NomenclaturalCode.ICBN);
|
| 73 |
ICdmDataSource dataSource = CdmDataSource.NewMySqlInstance("127.0.0.1", dataSourceName, 3306, username, password, NomenclaturalCode.ICNAFP);
|
|
| 71 |
ICdmDataSource dataSource = CdmDataSource.NewMySqlInstance("127.0.0.1", dataSourceName, 3306, username, password);
|
|
| 74 | 72 |
//ICdmDataSource dataSource = CdmDataSource.NewMySqlInstance("127.0.0.1", "cdm_edit_cichorieae", 3306, "ljm", password, NomenclaturalCode.ICBN);
|
| 75 |
//ICdmDataSource dataSource =
|
|
| 76 |
CdmDataSource.NewMySqlInstance("160.45.63.201", "cdm_edit_cichorieae", 3306, "edit", password, NomenclaturalCode.ICNAFP);
|
|
| 73 |
//ICdmDataSource dataSource = |
|
| 74 |
CdmDataSource.NewMySqlInstance("160.45.63.201", "cdm_edit_cichorieae", 3306, "edit", password);
|
|
| 77 | 75 |
boolean connectionAvailable; |
| 78 | 76 |
try {
|
| 79 | 77 |
connectionAvailable = dataSource.testConnection(); |
| ... | ... | |
| 92 | 90 |
try {
|
| 93 | 91 |
loadedDataSource = CdmPersistentDataSource.NewInstance(dataSourceName); |
| 94 | 92 |
// CdmApplicationController.NewInstance(loadedDataSource, DbSchemaValidation.CREATE); |
| 95 |
NomenclaturalCode loadedCode = loadedDataSource.getNomenclaturalCode(); |
|
| 96 |
|
|
| 97 |
Assert.assertEquals(NomenclaturalCode.ICNAFP, loadedCode); |
|
| 93 |
// NomenclaturalCode loadedCode = loadedDataSource.getNomenclaturalCode();
|
|
| 94 |
// |
|
| 95 |
// Assert.assertEquals(NomenclaturalCode.ICNAFP, loadedCode);
|
|
| 98 | 96 |
} catch (DataSourceNotFoundException e) {
|
| 99 |
// TODO Auto-generated catch block |
|
| 100 | 97 |
e.printStackTrace(); |
| 101 | 98 |
} |
| 102 | 99 |
//return loadedDataSource; |
| 103 | 100 |
return dataSource; |
| 104 | 101 |
} |
| 105 |
|
|
| 106 |
|
|
| 102 |
|
|
| 103 |
|
|
| 107 | 104 |
|
| 108 | 105 |
private static final Logger logger = Logger.getLogger(ViolaExportActivator.class); |
| 109 | 106 |
|
| ... | ... | |
| 141 | 138 |
// TODO Auto-generated catch block |
| 142 | 139 |
e.printStackTrace(); |
| 143 | 140 |
} |
| 144 |
|
|
| 145 |
//lorna//SDDExportConfigurator sddExportConfigurator =
|
|
| 141 |
|
|
| 142 |
//lorna//SDDExportConfigurator sddExportConfigurator = |
|
| 146 | 143 |
//SDDExportConfigurator.NewInstance(sourceDb, destinationFileName, destinationFolder); |
| 147 |
|
|
| 148 |
SDDExportConfigurator sddExportConfigurator =
|
|
| 144 |
|
|
| 145 |
SDDExportConfigurator sddExportConfigurator = |
|
| 149 | 146 |
SDDExportConfigurator.NewInstance(sourceDb, exporturlStr); |
| 150 |
|
|
| 151 |
|
|
| 152 |
CdmDefaultExport<SDDExportConfigurator> sddExport =
|
|
| 147 |
|
|
| 148 |
|
|
| 149 |
CdmDefaultExport<SDDExportConfigurator> sddExport = |
|
| 153 | 150 |
new CdmDefaultExport<SDDExportConfigurator>(); |
| 154 |
|
|
| 151 |
|
|
| 155 | 152 |
sddExportConfigurator.setSource(sourceDb); |
| 156 | 153 |
//lorna//sddExportConfigurator.setDestination(destinationFile); |
| 157 | 154 |
sddExportConfigurator.setDbSchemaValidation(DbSchemaValidation.VALIDATE); |
| ... | ... | |
| 187 | 184 |
public static void main(String[] args) {
|
| 188 | 185 |
|
| 189 | 186 |
SDDExportActivator sddex = new SDDExportActivator(); |
| 190 |
|
|
| 187 |
|
|
| 191 | 188 |
sddex.invokeExport(); |
| 192 | 189 |
|
| 193 | 190 |
} |
| app-import/src/main/java/eu/etaxonomy/cdm/app/sdd/SDDImportActivator.java | ||
|---|---|---|
| 1 | 1 |
/** |
| 2 | 2 |
* Copyright (C) 2007 EDIT |
| 3 |
* European Distributed Institute of Taxonomy
|
|
| 3 |
* European Distributed Institute of Taxonomy |
|
| 4 | 4 |
* http://www.e-taxonomy.eu |
| 5 |
*
|
|
| 5 |
* |
|
| 6 | 6 |
* The contents of this file are subject to the Mozilla Public License Version 1.1 |
| 7 | 7 |
* See LICENSE.TXT at the top of this package for the full license terms. |
| 8 | 8 |
*/ |
| ... | ... | |
| 14 | 14 |
import java.net.URL; |
| 15 | 15 |
import java.sql.SQLException; |
| 16 | 16 |
|
| 17 |
import junit.framework.Assert; |
|
| 18 |
|
|
| 19 | 17 |
import org.apache.log4j.Logger; |
| 20 | 18 |
|
| 21 | 19 |
import eu.etaxonomy.cdm.common.CdmUtils; |
| ... | ... | |
| 27 | 25 |
import eu.etaxonomy.cdm.io.common.CdmDefaultImport; |
| 28 | 26 |
import eu.etaxonomy.cdm.io.common.IImportConfigurator.CHECK; |
| 29 | 27 |
import eu.etaxonomy.cdm.io.sdd.in.SDDImportConfigurator; |
| 30 |
import eu.etaxonomy.cdm.model.name.NomenclaturalCode;
|
|
| 28 |
import junit.framework.Assert;
|
|
| 31 | 29 |
|
| 32 | 30 |
/** |
| 33 | 31 |
* @author h.fradin |
| ... | ... | |
| 59 | 57 |
String dataSourceName = CdmUtils.readInputLine("Database name: ");
|
| 60 | 58 |
String username = CdmUtils.readInputLine("Username: ");
|
| 61 | 59 |
String password = CdmUtils.readInputLine("Password: ");
|
| 62 |
|
|
| 60 |
|
|
| 63 | 61 |
dataSourceName = (dataSourceName.equals("")) ? "cdm_test4" : dataSourceName;
|
| 64 | 62 |
username = (username.equals("")) ? "ljm" : username;
|
| 65 |
|
|
| 66 |
ICdmDataSource dataSource = CdmDataSource.NewMySqlInstance("127.0.0.1", dataSourceName, 3306, username, password, NomenclaturalCode.ICNAFP);
|
|
| 63 |
|
|
| 64 |
ICdmDataSource dataSource = CdmDataSource.NewMySqlInstance("127.0.0.1", dataSourceName, 3306, username, password);
|
|
| 67 | 65 |
//ICdmDataSource dataSource = CdmDataSource.NewMySqlInstance("127.0.0.1", "cdm_edit_cichorieae", 3306, "ljm", password, NomenclaturalCode.ICBN);
|
| 68 | 66 |
//ICdmDataSource dataSource = CdmDataSource.NewMySqlInstance("160.45.63.201", "cdm_edit_cichorieae", 3306, "edit", password, NomenclaturalCode.ICBN);
|
| 69 | 67 |
boolean connectionAvailable; |
| ... | ... | |
| 73 | 71 |
Assert.assertTrue("Testdatabase is not available", connectionAvailable);
|
| 74 | 72 |
|
| 75 | 73 |
} catch (ClassNotFoundException e1) {
|
| 76 |
// TODO Auto-generated catch block |
|
| 77 | 74 |
e1.printStackTrace(); |
| 78 | 75 |
} catch (SQLException e1) {
|
| 79 |
// TODO Auto-generated catch block |
|
| 80 | 76 |
e1.printStackTrace(); |
| 81 | 77 |
} |
| 82 | 78 |
|
| ... | ... | |
| 84 | 80 |
try {
|
| 85 | 81 |
loadedDataSource = CdmPersistentDataSource.NewInstance(dataSourceName); |
| 86 | 82 |
// CdmApplicationController.NewInstance(loadedDataSource, DbSchemaValidation.CREATE); |
| 87 |
NomenclaturalCode loadedCode = loadedDataSource.getNomenclaturalCode(); |
|
| 88 |
|
|
| 89 |
Assert.assertEquals(NomenclaturalCode.ICNAFP, loadedCode); |
|
| 90 | 83 |
} catch (DataSourceNotFoundException e) {
|
| 91 |
// TODO Auto-generated catch block |
|
| 92 | 84 |
e.printStackTrace(); |
| 93 | 85 |
} |
| 94 | 86 |
//return loadedDataSource; |
| ... | ... | |
| 114 | 106 |
source = url.toURI(); |
| 115 | 107 |
//source = new URI("/eu/etaxonomy/cdm/app/sdd/SDDImportTest-input3.xml");
|
| 116 | 108 |
System.out.println("Start import from SDD("+ source.toString() + ") ...");
|
| 117 |
|
|
| 109 |
|
|
| 118 | 110 |
// ICdmDataSource destination = CdmDestinations.localH2("cdm","sa","C:/Documents and Settings/lis/Mes documents/CDMtest/");
|
| 119 | 111 |
//lorna//ICdmDataSource destination = CdmDestinations.localH2(args[3],"sa",args[2]); |
| 120 | 112 |
ICdmDataSource destination = customDataSource(); |
| 121 |
|
|
| 113 |
|
|
| 122 | 114 |
SDDImportConfigurator sddImportConfigurator = SDDImportConfigurator.NewInstance(source, destination); |
| 123 |
|
|
| 115 |
|
|
| 124 | 116 |
///sddImportConfigurator.setSourceSecId(sourceSecId); |
| 125 |
|
|
| 117 |
|
|
| 126 | 118 |
///sddImportConfigurator.setCheck(check); |
| 127 | 119 |
///sddImportConfigurator.setDbSchemaValidation(hbm2dll); |
| 128 |
|
|
| 120 |
|
|
| 129 | 121 |
// invoke import |
| 130 | 122 |
CdmDefaultImport<SDDImportConfigurator> sddImport = new CdmDefaultImport<SDDImportConfigurator>(); |
| 131 | 123 |
sddImport.invoke(sddImportConfigurator); |
| 132 |
|
|
| 124 |
|
|
| 133 | 125 |
System.out.println("End import from SDD ("+ source.toString() + ")...");
|
| 134 | 126 |
} catch (URISyntaxException e) {
|
| 135 | 127 |
e.printStackTrace(); |
| app-import/src/main/java/eu/etaxonomy/cdm/app/util/TestDatabase.java | ||
|---|---|---|
| 39 | 39 |
import eu.etaxonomy.cdm.model.location.Country; |
| 40 | 40 |
import eu.etaxonomy.cdm.model.location.NamedAreaType; |
| 41 | 41 |
import eu.etaxonomy.cdm.model.name.BotanicalName; |
| 42 |
import eu.etaxonomy.cdm.model.name.NomenclaturalCode; |
|
| 43 | 42 |
import eu.etaxonomy.cdm.model.name.Rank; |
| 44 | 43 |
import eu.etaxonomy.cdm.model.name.TaxonNameBase; |
| 45 | 44 |
import eu.etaxonomy.cdm.model.occurrence.DerivedUnit; |
| ... | ... | |
| 68 | 67 |
|
| 69 | 68 |
logger.info("Setting DB " + dbname);
|
| 70 | 69 |
String password = AccountStore.readOrStorePassword(dbname, server, username, null); |
| 71 |
ICdmDataSource datasource = CdmDataSource.NewMySqlInstance(server, dbname, username, password, NomenclaturalCode.ICNAFP);
|
|
| 70 |
ICdmDataSource datasource = CdmDataSource.NewMySqlInstance(server, dbname, username, password); |
|
| 72 | 71 |
return datasource; |
| 73 | 72 |
} |
| 74 | 73 |
|
| app-import/src/main/java/eu/etaxonomy/cdm/app/wp6/palmae/UseImport.java | ||
|---|---|---|
| 1 | 1 |
/** |
| 2 | 2 |
* Copyright (C) 2007 EDIT |
| 3 |
* European Distributed Institute of Taxonomy
|
|
| 3 |
* European Distributed Institute of Taxonomy |
|
| 4 | 4 |
* http://www.e-taxonomy.eu |
| 5 |
*
|
|
| 5 |
* |
|
| 6 | 6 |
* The contents of this file are subject to the Mozilla Public License Version 1.1 |
| 7 | 7 |
* See LICENSE.TXT at the top of this package for the full license terms. |
| 8 | 8 |
*/ |
| ... | ... | |
| 91 | 91 |
ICdmDataSource destination; |
| 92 | 92 |
if (dbType.equals(DatabaseTypeEnum.MySQL)) {
|
| 93 | 93 |
destination = CdmDataSource.NewMySqlInstance(cdmServer, cdmDB, |
| 94 |
port, cdmUserName, pwd, null);
|
|
| 94 |
port, cdmUserName, pwd); |
|
| 95 | 95 |
} else if (dbType.equals(DatabaseTypeEnum.PostgreSQL)) {
|
| 96 | 96 |
destination = CdmDataSource.NewPostgreSQLInstance(cdmServer, cdmDB, |
| 97 |
port, cdmUserName, pwd, null);
|
|
| 97 |
port, cdmUserName, pwd); |
|
| 98 | 98 |
} else {
|
| 99 | 99 |
// TODO others |
| 100 | 100 |
throw new RuntimeException("Unsupported DatabaseType");
|
| ... | ... | |
| 104 | 104 |
|
| 105 | 105 |
public boolean importFromExcelSS(String xlsPath) throws InvalidFormatException {
|
| 106 | 106 |
boolean success = true; |
| 107 |
|
|
| 107 |
|
|
| 108 | 108 |
CdmApplicationController applicationController = CdmApplicationController.NewInstance(dataSource()); |
| 109 | 109 |
ConversationHolder conversation = applicationController.NewConversation(); |
| 110 | 110 |
conversation.startTransaction(); |
| 111 |
|
|
| 111 |
|
|
| 112 | 112 |
ITaxonService service = applicationController.getTaxonService(); |
| 113 | 113 |
ITermService termService = applicationController.getTermService(); |
| 114 | 114 |
IDescriptionService descService = applicationController.getDescriptionService(); |
| 115 | 115 |
IReferenceService referenceService = applicationController.getReferenceService(); |
| 116 | 116 |
InputStream inputStream = null; |
| 117 |
|
|
| 117 |
|
|
| 118 | 118 |
try {
|
| 119 | 119 |
inputStream = new FileInputStream(xlsPath); |
| 120 | 120 |
|
| ... | ... | |
| 125 | 125 |
} |
| 126 | 126 |
|
| 127 | 127 |
// POIFSFileSystem fileSystem = null; |
| 128 |
|
|
| 128 |
|
|
| 129 | 129 |
try {
|
| 130 | 130 |
// fileSystem = new POIFSFileSystem(inputStream); |
| 131 | 131 |
// |
| 132 | 132 |
// HSSFWorkbook workBook = new HSSFWorkbook(fileSystem); |
| 133 | 133 |
Workbook workBook = WorkbookFactory.create(inputStream); |
| 134 | 134 |
|
| 135 |
|
|
| 135 |
|
|
| 136 | 136 |
Sheet sheet = workBook.getSheetAt(0); |
| 137 | 137 |
Iterator<Row> rows = sheet.rowIterator(); |
| 138 | 138 |
// Iterator rows = sheet.rowIterator(); |
| 139 | 139 |
ArrayList<ArrayList<String>> lstUpdates = new ArrayList<ArrayList<String>>(); |
| 140 | 140 |
Set<Integer> lstTaxonIDs = new HashSet<Integer>(); |
| 141 | 141 |
//Set<Integer> lstTaxonIDs; |
| 142 |
|
|
| 142 |
|
|
| 143 | 143 |
|
| 144 | 144 |
while (rows.hasNext()) {
|
| 145 | 145 |
|
| ... | ... | |
| 526 | 526 |
e.printStackTrace(); |
| 527 | 527 |
} |
| 528 | 528 |
|
| 529 |
|
|
| 529 |
|
|
| 530 | 530 |
try {
|
| 531 | 531 |
// POIFSFileSystem fileSystem = new POIFSFileSystem(inputStream); |
| 532 | 532 |
// HSSFWorkbook workBook = new HSSFWorkbook(fileSystem); |
| 533 | 533 |
|
| 534 | 534 |
Workbook workBook = WorkbookFactory.create(inputStream); |
| 535 | 535 |
|
| 536 |
|
|
| 536 |
|
|
| 537 | 537 |
Sheet sheet = workBook.getSheetAt(0); |
| 538 | 538 |
Iterator<Row> rows = sheet.rowIterator(); |
| 539 | 539 |
|
| 540 | 540 |
ArrayList<ArrayList<String>> lstUpdates = new ArrayList<ArrayList<String>>(); |
| 541 |
|
|
| 541 |
|
|
| 542 | 542 |
while (rows.hasNext()) {
|
| 543 | 543 |
|
| 544 | 544 |
Row row = rows.next(); |
| ... | ... | |
| 585 | 585 |
vocabularyService.saveOrUpdate(stateVocabulary); |
| 586 | 586 |
conversation.commit(true); |
| 587 | 587 |
break; |
| 588 |
|
|
| 588 |
|
|
| 589 | 589 |
//case 1: = HumanGroup |
| 590 | 590 |
case 1: |
| 591 | 591 |
Pager<DefinedTerm> humanGroupPager = termService.findByRepresentationText(lstUpdate.get(1), DefinedTerm.class, null, null); |
| 592 |
|
|
| 592 |
|
|
| 593 | 593 |
DefinedTerm humanGroup = null; |
| 594 | 594 |
DefinedTerm ethnicGroup = null; |
| 595 | 595 |
if(humanGroupPager.getCount()>0) {
|
| 596 | 596 |
humanGroup = humanGroupPager.getRecords().get(0); |
| 597 | 597 |
} |
| 598 |
|
|
| 598 |
|
|
| 599 | 599 |
if(humanGroup == null) {
|
| 600 | 600 |
humanGroup = DefinedTerm.NewModifierInstance(lstUpdate.get(1), lstUpdate.get(1), null); |
| 601 | 601 |
} |
| 602 |
|
|
| 602 |
|
|
| 603 | 603 |
if(lstUpdate.size() >2) {
|
| 604 | 604 |
ethnicGroup = DefinedTerm.NewModifierInstance(lstUpdate.get(2), lstUpdate.get(2), null); |
| 605 | 605 |
humanGroup.addIncludes(ethnicGroup); |
| ... | ... | |
| 608 | 608 |
vocabularyService.saveOrUpdate(humanGroupVocabulary); |
| 609 | 609 |
conversation.commit(true); |
| 610 | 610 |
break; |
| 611 |
|
|
| 611 |
|
|
| 612 | 612 |
//case 2: = Country |
| 613 | 613 |
case 2: |
| 614 | 614 |
Pager<DefinedTerm> countryPager = termService.findByRepresentationText(lstUpdate.get(1), DefinedTerm.class, null, null); |
| 615 | 615 |
DefinedTermBase country = null; |
| 616 |
|
|
| 616 |
|
|
| 617 | 617 |
if(countryPager.getCount()>0) {
|
| 618 | 618 |
country = countryPager.getRecords().get(0); |
| 619 | 619 |
} |
| 620 |
|
|
| 620 |
|
|
| 621 | 621 |
if(country == null) {
|
| 622 | 622 |
country = NamedArea.NewInstance(lstUpdate.get(1), lstUpdate.get(1), null); |
| 623 | 623 |
countryVocabulary.addTerm(country); |
| ... | ... | |
| 625 | 625 |
} |
| 626 | 626 |
conversation.commit(true); |
| 627 | 627 |
break; |
| 628 |
|
|
| 628 |
|
|
| 629 | 629 |
//case 3: //plantPart |
| 630 | 630 |
case 3: |
| 631 | 631 |
Pager<DefinedTerm> plantPartPager = termService.findByRepresentationText(lstUpdate.get(1), DefinedTerm.class, null, null); |
| 632 | 632 |
DefinedTerm plantPart = null; |
| 633 |
|
|
| 633 |
|
|
| 634 | 634 |
if(plantPartPager.getCount()>0) {
|
| 635 | 635 |
plantPart = plantPartPager.getRecords().get(0); |
| 636 | 636 |
} |
| 637 |
|
|
| 637 |
|
|
| 638 | 638 |
if(plantPart == null) {
|
| 639 | 639 |
plantPart = DefinedTerm.NewModifierInstance(lstUpdate.get(1), lstUpdate.get(1), null); |
| 640 | 640 |
plantPartVocabulary.addTerm(plantPart); |
| ... | ... | |
| 667 | 667 |
System.out.println("File not found in the specified path.");
|
| 668 | 668 |
e.printStackTrace(); |
| 669 | 669 |
} |
| 670 |
|
|
| 670 |
|
|
| 671 | 671 |
try {
|
| 672 | 672 |
// POIFSFileSystem fileSystem = new POIFSFileSystem(inputStream); |
| 673 | 673 |
// HSSFWorkbook workBook = new HSSFWorkbook(fileSystem); |
| 674 |
|
|
| 674 |
|
|
| 675 | 675 |
Workbook workBook = WorkbookFactory.create(inputStream); |
| 676 | 676 |
|
| 677 |
|
|
| 677 |
|
|
| 678 | 678 |
Sheet sheet = workBook.getSheetAt(0); |
| 679 | 679 |
Iterator<Row> rows = sheet.rowIterator(); |
| 680 | 680 |
// Iterator rows = sheet.rowIterator(); |
| 681 | 681 |
//Set<Integer> lstTaxonIDs; |
| 682 |
|
|
| 682 |
|
|
| 683 | 683 |
|
| 684 | 684 |
while (rows.hasNext()) {
|
| 685 | 685 |
|
| ... | ... | |
| 763 | 763 |
} |
| 764 | 764 |
countryVocabulary = TermVocabulary.NewInstance(TermType.NamedArea, "Country", "Country", null, termSourceUri); |
| 765 | 765 |
countryVocabulary.setUuid(UUID.fromString("116c51f1-e63a-46f7-a258-e1149a42868b"));
|
| 766 |
|
|
| 766 |
|
|
| 767 | 767 |
vocabularyService.saveOrUpdate(countryVocabulary); |
| 768 | 768 |
conversation.commit(true); |
| 769 | 769 |
} |
| ... | ... | |
| 815 | 815 |
FeatureNode useSumFeatureNode = FeatureNode.NewInstance(featureUseSummary); |
| 816 | 816 |
palmWebFeatureTree.getRoot().addChild(useSumFeatureNode); |
| 817 | 817 |
} |
| 818 |
|
|
| 818 |
|
|
| 819 | 819 |
vocabularyService.saveOrUpdate(featureVocabulary); |
| 820 | 820 |
featureTreeService.saveOrUpdate(palmWebFeatureTree); |
| 821 | 821 |
conversation.commit(true); |
| 822 |
|
|
| 822 |
|
|
| 823 | 823 |
} |
| 824 | 824 |
if(notAvailModPager.getCount() == 0) {
|
| 825 | 825 |
DefinedTerm notAvailMod = DefinedTerm.NewInstance(TermType.Modifier, "N/A", "N/A", null); |
| 826 | 826 |
termService.saveOrUpdate(notAvailMod); |
| 827 | 827 |
conversation.commit(true); |
| 828 | 828 |
} |
| 829 |
|
|
| 829 |
|
|
| 830 | 830 |
if(notAvailStatePager.getCount() == 0) {
|
| 831 | 831 |
State notAvailState = State.NewInstance("N/A", "N/A", null);
|
| 832 | 832 |
termService.saveOrUpdate(notAvailState); |
| ... | ... | |
| 845 | 845 |
vocabularyService.saveOrUpdate(featureVocabulary); |
| 846 | 846 |
featureTreeService.saveOrUpdate(palmWebFeatureTree); |
| 847 | 847 |
conversation.commit(true); |
| 848 |
|
|
| 848 |
|
|
| 849 | 849 |
} |
| 850 | 850 |
if(featureUseSummary == null) {
|
| 851 | 851 |
featureUseSummary = Feature.NewInstance("Use Summary", "Use Summary", null);
|
| ... | ... | |
| 861 | 861 |
featureTreeService.saveOrUpdate(palmWebFeatureTree); |
| 862 | 862 |
conversation.commit(true); |
| 863 | 863 |
}*/ |
| 864 |
|
|
| 864 |
|
|
| 865 | 865 |
conversation.close(); |
| 866 | 866 |
applicationController.close(); |
| 867 |
|
|
| 867 |
|
|
| 868 | 868 |
return success; |
| 869 | 869 |
} |
| 870 | 870 |
|
| ... | ... | |
| 872 | 872 |
UseImport uiImport = new UseImport(); |
| 873 | 873 |
// String xlsPath = ".//toload.xlsx"; |
| 874 | 874 |
//String xlsPath = "C://workspace//CDM Trunk//UseImport//src//main//java//eu//etaxonomy//cdm//toLoad2.xls"; |
| 875 |
|
|
| 875 |
|
|
| 876 | 876 |
uiImport.setupNecessaryItems(); |
| 877 | 877 |
try {
|
| 878 | 878 |
uiImport.loadTerms(); |
| cdm-eflora/src/main/java/eu/etaxonomy/cdm/app/eflora/CdmDestinations.java | ||
|---|---|---|
| 1 | 1 |
/** |
| 2 | 2 |
* Copyright (C) 2007 EDIT |
| 3 |
* European Distributed Institute of Taxonomy
|
|
| 3 |
* European Distributed Institute of Taxonomy |
|
| 4 | 4 |
* http://www.e-taxonomy.eu |
| 5 |
*
|
|
| 5 |
* |
|
| 6 | 6 |
* The contents of this file are subject to the Mozilla Public License Version 1.1 |
| 7 | 7 |
* See LICENSE.TXT at the top of this package for the full license terms. |
| 8 | 8 |
*/ |
| ... | ... | |
| 22 | 22 |
public class CdmDestinations {
|
| 23 | 23 |
@SuppressWarnings("unused")
|
| 24 | 24 |
private static Logger logger = Logger.getLogger(CdmDestinations.class); |
| 25 |
|
|
| 25 |
|
|
| 26 | 26 |
/** |
| 27 | 27 |
* Intended to be used for imports |
| 28 | 28 |
*/ |
| ... | ... | |
| 33 | 33 |
String cdmUserName = "root"; |
| 34 | 34 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 35 | 35 |
} |
| 36 |
|
|
| 36 |
|
|
| 37 | 37 |
public static ICdmDataSource cdm_test_local_mysql(){
|
| 38 | 38 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 39 | 39 |
String cdmServer = "127.0.0.1"; |
| 40 |
String cdmDB = "cdm_test";
|
|
| 40 |
String cdmDB = "cdm_test"; |
|
| 41 | 41 |
String cdmUserName = "root"; |
| 42 | 42 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 43 | 43 |
} |
| ... | ... | |
| 45 | 45 |
public static ICdmDataSource cdm_test_local_mysql_fdac(){
|
| 46 | 46 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 47 | 47 |
String cdmServer = "127.0.0.1"; |
| 48 |
String cdmDB = "fdac";
|
|
| 48 |
String cdmDB = "fdac"; |
|
| 49 | 49 |
String cdmUserName = "edit"; |
| 50 | 50 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 51 | 51 |
} |
| 52 |
|
|
| 52 |
|
|
| 53 | 53 |
public static ICdmDataSource cdm_test_local_mysql_test(){
|
| 54 | 54 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 55 | 55 |
String cdmServer = "127.0.0.1"; |
| 56 |
String cdmDB = "test";
|
|
| 56 |
String cdmDB = "test"; |
|
| 57 | 57 |
String cdmUserName = "edit"; |
| 58 | 58 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 59 | 59 |
} |
| ... | ... | |
| 61 | 61 |
public static ICdmDataSource cdm_test_local_fdac(){
|
| 62 | 62 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 63 | 63 |
String cdmServer = "127.0.0.1"; |
| 64 |
String cdmDB = "fdac";
|
|
| 64 |
String cdmDB = "fdac"; |
|
| 65 | 65 |
String cdmUserName = "root"; |
| 66 | 66 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 67 | 67 |
} |
| ... | ... | |
| 74 | 74 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 75 | 75 |
} |
| 76 | 76 |
|
| 77 |
|
|
| 77 |
|
|
| 78 | 78 |
public static ICdmDataSource cdm_campanulaceae_production(){
|
| 79 | 79 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 80 | 80 |
String cdmServer = "160.45.63.171"; |
| ... | ... | |
| 82 | 82 |
String cdmUserName = "edit"; |
| 83 | 83 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 84 | 84 |
} |
| 85 |
|
|
| 85 |
|
|
| 86 | 86 |
public static ICdmDataSource cdm_flora_malesiana_preview(){
|
| 87 | 87 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 88 | 88 |
String cdmServer = "160.45.63.175"; |
| ... | ... | |
| 107 | 107 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 108 | 108 |
} |
| 109 | 109 |
|
| 110 |
|
|
| 110 |
|
|
| 111 | 111 |
public static ICdmDataSource cdm_flora_guianas_preview(){
|
| 112 | 112 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 113 | 113 |
String cdmServer = "160.45.63.175"; |
| ... | ... | |
| 123 | 123 |
String cdmUserName = "edit"; |
| 124 | 124 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 125 | 125 |
} |
| 126 |
|
|
| 126 |
|
|
| 127 | 127 |
public static ICdmDataSource cdm_flore_gabon_preview(){
|
| 128 | 128 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 129 | 129 |
String cdmServer = "160.45.63.175"; |
| ... | ... | |
| 131 | 131 |
String cdmUserName = "edit"; |
| 132 | 132 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 133 | 133 |
} |
| 134 |
|
|
| 134 |
|
|
| 135 | 135 |
public static ICdmDataSource cdm_flore_gabon_production(){
|
| 136 | 136 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 137 | 137 |
String cdmServer = "160.45.63.171"; |
| ... | ... | |
| 140 | 140 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 141 | 141 |
} |
| 142 | 142 |
|
| 143 |
|
|
| 143 |
|
|
| 144 | 144 |
public static ICdmDataSource cdm_flora_central_africa_local(){
|
| 145 | 145 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 146 | 146 |
String cdmServer = "localhost"; |
| ... | ... | |
| 148 | 148 |
String cdmUserName = "edit"; |
| 149 | 149 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 150 | 150 |
} |
| 151 |
|
|
| 151 |
|
|
| 152 | 152 |
public static ICdmDataSource cdm_flora_central_africa_preview(){
|
| 153 | 153 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 154 | 154 |
String cdmServer = "160.45.63.175"; |
| ... | ... | |
| 156 | 156 |
String cdmUserName = "edit"; |
| 157 | 157 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 158 | 158 |
} |
| 159 |
|
|
| 159 |
|
|
| 160 | 160 |
public static ICdmDataSource cdm_flora_central_africa_production(){
|
| 161 | 161 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 162 | 162 |
String cdmServer = "160.45.63.171"; |
| ... | ... | |
| 164 | 164 |
String cdmUserName = "edit"; |
| 165 | 165 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 166 | 166 |
} |
| 167 |
|
|
| 167 |
|
|
| 168 | 168 |
public static ICdmDataSource cdm_portal_test_localhost(){
|
| 169 | 169 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 170 | 170 |
String cdmServer = "127.0.0.1"; |
| ... | ... | |
| 172 | 172 |
String cdmUserName = "edit"; |
| 173 | 173 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 174 | 174 |
} |
| 175 |
|
|
| 175 |
|
|
| 176 | 176 |
public static ICdmDataSource cdm_portal_test_localhost2(){
|
| 177 | 177 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 178 | 178 |
String cdmServer = "127.0.0.1"; |
| ... | ... | |
| 180 | 180 |
String cdmUserName = "edit"; |
| 181 | 181 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 182 | 182 |
} |
| 183 |
|
|
| 183 |
|
|
| 184 | 184 |
public static ICdmDataSource cdm_local_postgres_CdmTest(){
|
| 185 | 185 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.PostgreSQL; |
| 186 | 186 |
String cdmServer = "127.0.0.1"; |
| ... | ... | |
| 189 | 189 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 190 | 190 |
} |
| 191 | 191 |
|
| 192 |
|
|
| 193 |
|
|
| 192 |
|
|
| 193 |
|
|
| 194 | 194 |
public static ICdmDataSource NULL(){
|
| 195 | 195 |
return null; |
| 196 | 196 |
} |
| 197 |
|
|
| 198 |
|
|
| 197 |
|
|
| 198 |
|
|
| 199 | 199 |
public static ICdmDataSource localH2(){
|
| 200 | 200 |
return CdmDataSource.NewH2EmbeddedInstance("cdm", "sa", "");
|
| 201 | 201 |
} |
| 202 |
|
|
| 202 |
|
|
| 203 | 203 |
public static ICdmDataSource localH2(String database, String username, String filePath){
|
| 204 |
return CdmDataSource.NewH2EmbeddedInstance(database, "sa", "", filePath, null);
|
|
| 204 |
return CdmDataSource.NewH2EmbeddedInstance(database, "sa", "", filePath); |
|
| 205 | 205 |
} |
| 206 |
|
|
| 206 |
|
|
| 207 | 207 |
public static ICdmDataSource localH2Salvador(){
|
| 208 | 208 |
return CdmDataSource.NewH2EmbeddedInstance("salvador", "sa", "");
|
| 209 | 209 |
} |
| 210 |
|
|
| 210 |
|
|
| 211 | 211 |
public static ICdmDataSource localH2Diptera(){
|
| 212 | 212 |
return CdmDataSource.NewH2EmbeddedInstance("diptera", "sa", "");
|
| 213 | 213 |
} |
| 214 |
|
|
| 215 |
|
|
| 214 |
|
|
| 215 |
|
|
| 216 | 216 |
public static ICdmDataSource localH2Cichorieae(){
|
| 217 | 217 |
return CdmDataSource.NewH2EmbeddedInstance("cichorieae", "sa", "");
|
| 218 | 218 |
} |
| 219 |
|
|
| 219 |
|
|
| 220 | 220 |
public static ICdmDataSource localH2Palmae(){
|
| 221 | 221 |
return CdmDataSource.NewH2EmbeddedInstance("palmae", "sa", "");
|
| 222 | 222 |
} |
| 223 |
|
|
| 223 |
|
|
| 224 | 224 |
public static ICdmDataSource localH2EuroMed(){
|
| 225 | 225 |
return CdmDataSource.NewH2EmbeddedInstance("euroMed", "sa", "");
|
| 226 | 226 |
} |
| 227 |
|
|
| 227 |
|
|
| 228 | 228 |
public static ICdmDataSource localH2Erms(){
|
| 229 | 229 |
return CdmDataSource.NewH2EmbeddedInstance("erms", "sa", "");
|
| 230 | 230 |
} |
| 231 |
|
|
| 231 |
|
|
| 232 | 232 |
public static ICdmDataSource localH2_viola(){
|
| 233 | 233 |
return CdmDataSource.NewH2EmbeddedInstance("testViola", "sa", "");
|
| 234 | 234 |
} |
| 235 |
|
|
| 235 |
|
|
| 236 | 236 |
public static ICdmDataSource localH2_LIAS(){
|
| 237 | 237 |
return CdmDataSource.NewH2EmbeddedInstance("testLIAS", "sa", "");
|
| 238 | 238 |
} |
| 239 |
|
|
| 239 |
|
|
| 240 | 240 |
public static ICdmDataSource localH2_Erythroneura(){
|
| 241 | 241 |
return CdmDataSource.NewH2EmbeddedInstance("testErythroneura", "sa", "");
|
| 242 | 242 |
} |
| 243 |
|
|
| 243 |
|
|
| 244 | 244 |
public static ICdmDataSource localH2_Cicad(){
|
| 245 | 245 |
return CdmDataSource.NewH2EmbeddedInstance("testCicad", "sa", "");
|
| 246 | 246 |
} |
| 247 |
|
|
| 247 |
|
|
| 248 | 248 |
public static ICdmDataSource localH2_ValRosandraFRIDAKey(){
|
| 249 | 249 |
return CdmDataSource.NewH2EmbeddedInstance("testValRosandraFRIDAKey", "sa", "");
|
| 250 | 250 |
} |
| 251 |
|
|
| 251 |
|
|
| 252 | 252 |
public static ICdmDataSource localH2_FreshwaterAquaticInsects(){
|
| 253 | 253 |
return CdmDataSource.NewH2EmbeddedInstance("testFreshwaterAquaticInsects", "sa", "");
|
| 254 | 254 |
} |
| 255 |
|
|
| 255 |
|
|
| 256 | 256 |
public static ICdmDataSource cdm_portal_test_pollux(){
|
| 257 | 257 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 258 | 258 |
String cdmServer = "192.168.2.11"; |
| ... | ... | |
| 264 | 264 |
public static ICdmDataSource cdm_algaterra_preview(){
|
| 265 | 265 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 266 | 266 |
String cdmServer = "160.45.63.201"; |
| 267 |
String cdmDB = "cdm_edit_algaterra";
|
|
| 267 |
String cdmDB = "cdm_edit_algaterra"; |
|
| 268 | 268 |
String cdmUserName = "edit"; |
| 269 | 269 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 270 | 270 |
} |
| 271 |
|
|
| 271 |
|
|
| 272 | 272 |
public static ICdmDataSource cdm_edit_cichorieae_PG(){
|
| 273 | 273 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.PostgreSQL; |
| 274 | 274 |
String cdmServer = "127.0.0.1"; |
| 275 |
String cdmDB = "cdm_edit_cichorieae_a";
|
|
| 275 |
String cdmDB = "cdm_edit_cichorieae_a"; |
|
| 276 | 276 |
String cdmUserName = "edit"; |
| 277 | 277 |
int port = 15432; |
| 278 | 278 |
return makeDestination(dbType, cdmServer, cdmDB, port, cdmUserName, null); |
| ... | ... | |
| 281 | 281 |
public static ICdmDataSource cdm_cichorieae_preview(){
|
| 282 | 282 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 283 | 283 |
String cdmServer = "160.45.63.201"; |
| 284 |
String cdmDB = "cdm_edit_cichorieae";
|
|
| 284 |
String cdmDB = "cdm_edit_cichorieae"; |
|
| 285 | 285 |
String cdmUserName = "edit"; |
| 286 | 286 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 287 | 287 |
} |
| 288 |
|
|
| 288 |
|
|
| 289 | 289 |
public static ICdmDataSource cdm_production_cichorieae(){
|
| 290 | 290 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 291 | 291 |
String cdmServer = "160.45.63.151"; |
| 292 | 292 |
// String cdmServer = "127.0.0.1"; |
| 293 |
String cdmDB = "cdm_production_cichorieae";
|
|
| 293 |
String cdmDB = "cdm_production_cichorieae"; |
|
| 294 | 294 |
String cdmUserName = "edit"; |
| 295 | 295 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 296 | 296 |
} |
| 297 |
|
|
| 297 |
|
|
| 298 | 298 |
public static ICdmDataSource cdm_production_palmae(){
|
| 299 | 299 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 300 | 300 |
String cdmServer = "160.45.63.151"; |
| 301 |
String cdmDB = "cdm_production_palmae";
|
|
| 301 |
String cdmDB = "cdm_production_palmae"; |
|
| 302 | 302 |
String cdmUserName = "edit"; |
| 303 | 303 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 304 | 304 |
} |
| 305 |
|
|
| 306 |
|
|
| 305 |
|
|
| 306 |
|
|
| 307 | 307 |
public static ICdmDataSource cdm_production_diptera(){
|
| 308 | 308 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 309 | 309 |
String cdmServer = "160.45.63.151"; |
| 310 |
String cdmDB = "cdm_production_diptera";
|
|
| 310 |
String cdmDB = "cdm_production_diptera"; |
|
| 311 | 311 |
String cdmUserName = "edit"; |
| 312 | 312 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 313 | 313 |
} |
| 314 |
|
|
| 314 |
|
|
| 315 | 315 |
public static ICdmDataSource local_cdm_edit_cichorieae_a(){
|
| 316 | 316 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 317 | 317 |
String cdmServer = "127.0.0.1"; |
| 318 |
String cdmDB = "cdm_edit_cichorieae_a";
|
|
| 318 |
String cdmDB = "cdm_edit_cichorieae_a"; |
|
| 319 | 319 |
String cdmUserName = "edit"; |
| 320 | 320 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 321 | 321 |
} |
| 322 |
|
|
| 322 |
|
|
| 323 | 323 |
public static ICdmDataSource local_cdm_edit_cichorieae_b(){
|
| 324 | 324 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 325 | 325 |
String cdmServer = "127.0.0.1"; |
| 326 |
String cdmDB = "cdm_edit_cichorieae_b";
|
|
| 326 |
String cdmDB = "cdm_edit_cichorieae_b"; |
|
| 327 | 327 |
String cdmUserName = "edit"; |
| 328 | 328 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 329 | 329 |
} |
| ... | ... | |
| 339 | 339 |
public static ICdmDataSource cdm_edit_diptera_preview_B(){
|
| 340 | 340 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 341 | 341 |
String cdmServer = "127.0.0.1"; |
| 342 |
String cdmDB = "cdm_edit_diptera_b";
|
|
| 342 |
String cdmDB = "cdm_edit_diptera_b"; |
|
| 343 | 343 |
String cdmUserName = "edit"; |
| 344 | 344 |
int port = 13306; |
| 345 | 345 |
return makeDestination(dbType, cdmServer, cdmDB, port, cdmUserName, null); |
| 346 | 346 |
} |
| 347 |
|
|
| 347 |
|
|
| 348 | 348 |
public static ICdmDataSource cdm_edit_cichorieae_preview(){
|
| 349 | 349 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 350 | 350 |
String cdmServer = "127.0.0.1"; |
| 351 |
String cdmDB = "cdm_edit_cichorieae";
|
|
| 351 |
String cdmDB = "cdm_edit_cichorieae"; |
|
| 352 | 352 |
String cdmUserName = "edit"; |
| 353 | 353 |
int port = 13306; |
| 354 | 354 |
return makeDestination(dbType, cdmServer, cdmDB, port, cdmUserName, null); |
| ... | ... | |
| 357 | 357 |
public static ICdmDataSource cdm_edit_palmae_preview(){
|
| 358 | 358 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 359 | 359 |
String cdmServer = "127.0.0.1"; |
| 360 |
String cdmDB = "cdm_edit_palmae";
|
|
| 360 |
String cdmDB = "cdm_edit_palmae"; |
|
| 361 | 361 |
String cdmUserName = "edit"; |
| 362 | 362 |
int port = 13306; |
| 363 | 363 |
return makeDestination(dbType, cdmServer, cdmDB, port, cdmUserName, null); |
| 364 |
}
|
|
| 365 |
|
|
| 364 |
} |
|
| 365 |
|
|
| 366 | 366 |
public static ICdmDataSource cdm_edit_salvador(){
|
| 367 | 367 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 368 | 368 |
String cdmServer = "192.168.2.10"; |
| 369 |
String cdmDB = "cdm_edit_salvador";
|
|
| 369 |
String cdmDB = "cdm_edit_salvador"; |
|
| 370 | 370 |
String cdmUserName = "edit"; |
| 371 | 371 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 372 | 372 |
} |
| 373 |
|
|
| 373 |
|
|
| 374 | 374 |
public static ICdmDataSource cdm_import_salvador() {
|
| 375 | 375 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 376 | 376 |
String cdmServer = "192.168.2.10"; |
| 377 |
String cdmDB = "cdm_import_salvador";
|
|
| 377 |
String cdmDB = "cdm_import_salvador"; |
|
| 378 | 378 |
String cdmUserName = "edit"; |
| 379 | 379 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 380 | 380 |
} |
| 381 |
|
|
| 381 |
|
|
| 382 | 382 |
public static ICdmDataSource cdm_salvador_production() {
|
| 383 | 383 |
DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL; |
| 384 | 384 |
String cdmServer = "192.168.2.10"; |
| 385 |
String cdmDB = "salvador_cdm";
|
|
| 385 |
String cdmDB = "salvador_cdm"; |
|
| 386 | 386 |
String cdmUserName = "salvador"; |
| 387 | 387 |
return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null); |
| 388 | 388 |
} |
| 389 |
|
|
| 390 |
|
|
| 389 |
|
|
| 390 |
|
|
| 391 | 391 |
// public static ICdmDataSource LAPTOP_HP(){
|
| 392 | 392 |
// DatabaseTypeEnum dbType = DatabaseTypeEnum.SqlServer2005; |
| 393 | 393 |
// String cdmServer = "LAPTOPHP"; |
| 394 |
// String cdmDB = "cdmTest";
|
|
| 394 |
// String cdmDB = "cdmTest"; |
|
| 395 | 395 |
// String cdmUserName = "edit"; |
| 396 | 396 |
// return makeDestination(cdmServer, cdmDB, -1, cdmUserName, null); |
| 397 | 397 |
// } |
| 398 |
|
|
| 399 |
|
|
| 400 | 398 |
|
| 401 |
|
|
| 399 |
|
|
| 400 |
|
|
| 401 |
|
|
| 402 | 402 |
/** |
| 403 | 403 |
* initializes source |
| 404 | 404 |
* TODO only supports MySQL and PostgreSQL |
| 405 |
*
|
|
| 405 |
* |
|
| 406 | 406 |
* @param dbType |
| 407 | 407 |
* @param cdmServer |
| 408 | 408 |
* @param cdmDB |
| ... | ... | |
| 416 | 416 |
pwd = AccountStore.readOrStorePassword(cdmServer, cdmDB, cdmUserName, pwd); |
| 417 | 417 |
ICdmDataSource destination; |
| 418 | 418 |
if(dbType.equals(DatabaseTypeEnum.MySQL)){
|
| 419 |
destination = CdmDataSource.NewMySqlInstance(cdmServer, cdmDB, port, cdmUserName, pwd, null);
|
|
| 419 |
destination = CdmDataSource.NewMySqlInstance(cdmServer, cdmDB, port, cdmUserName, pwd);
|
|
| 420 | 420 |
} else if(dbType.equals(DatabaseTypeEnum.PostgreSQL)){
|
| 421 |
destination = CdmDataSource.NewPostgreSQLInstance(cdmServer, cdmDB, port, cdmUserName, pwd, null);
|
|
| 421 |
destination = CdmDataSource.NewPostgreSQLInstance(cdmServer, cdmDB, port, cdmUserName, pwd);
|
|
| 422 | 422 |
} else {
|
| 423 | 423 |
//TODO others |
| 424 | 424 |
throw new RuntimeException("Unsupported DatabaseType");
|
| ... | ... | |
| 429 | 429 |
|
| 430 | 430 |
|
| 431 | 431 |
/** |
| 432 |
* Accepts a string array and tries to find a method returning an ICdmDataSource with
|
|
| 432 |
* Accepts a string array and tries to find a method returning an ICdmDataSource with |
|
| 433 | 433 |
* the name of the given first string in the array |
| 434 |
*
|
|
| 434 |
* |
|
| 435 | 435 |
* @param args |
| 436 | 436 |
* @return |
| 437 | 437 |
*/ |
| 438 | 438 |
public static ICdmDataSource chooseDestination(String[] args) {
|
| 439 |
if(args == null) |
|
| 440 |
return null; |
|
| 441 |
|
|
| 442 |
if(args.length != 1) |
|
| 443 |
return null; |
|
| 444 |
|
|
| 439 |
if(args == null) {
|
|
| 440 |
return null; |
|
| 441 |
} |
|
| 442 |
|
|
| 443 |
if(args.length != 1) {
|
|
| 444 |
return null; |
|
| 445 |
} |
|
| 446 |
|
|
| 445 | 447 |
String possibleDestination = args[0]; |
| 446 |
|
|
| 448 |
|
|
| 447 | 449 |
Method[] methods = CdmDestinations.class.getMethods(); |
| 448 |
|
|
| 450 |
|
|
| 449 | 451 |
for (Method method : methods){
|
| 450 | 452 |
if(method.getName().equals(possibleDestination)){
|
| 451 | 453 |
try {
|
| cdm-pesi/src/main/java/eu/etaxonomy/cdm/app/common/CdmDestinations.java | ||
|---|---|---|
| 109 | 109 |
} |
| 110 | 110 |
|
| 111 | 111 |
public static ICdmDataSource localH2(String database, String username, String filePath){
|
| 112 |
return CdmDataSource.NewH2EmbeddedInstance(database, "sa", "", filePath, null);
|
|
| 112 |
return CdmDataSource.NewH2EmbeddedInstance(database, "sa", "", filePath); |
|
| 113 | 113 |
} |
| 114 | 114 |
|
| 115 | 115 |
|
| ... | ... | |
| 173 | 173 |
pwd = AccountStore.readOrStorePassword(cdmServer, cdmDB, cdmUserName, pwd); |
| 174 | 174 |
ICdmDataSource destination; |
| 175 | 175 |
if(dbType.equals(DatabaseTypeEnum.MySQL)){
|
| 176 |
destination = CdmDataSource.NewMySqlInstance(cdmServer, cdmDB, port, cdmUserName, pwd, null);
|
|
| 176 |
destination = CdmDataSource.NewMySqlInstance(cdmServer, cdmDB, port, cdmUserName, pwd); |
|
| 177 | 177 |
} else if(dbType.equals(DatabaseTypeEnum.PostgreSQL)){
|
| 178 |
destination = CdmDataSource.NewPostgreSQLInstance(cdmServer, cdmDB, port, cdmUserName, pwd, null);
|
|
| 178 |
destination = CdmDataSource.NewPostgreSQLInstance(cdmServer, cdmDB, port, cdmUserName, pwd); |
|
| 179 | 179 |
} else {
|
| 180 | 180 |
//TODO others |
| 181 | 181 |
throw new RuntimeException("Unsupported DatabaseType");
|
| cdm-pesi/src/main/java/eu/etaxonomy/cdm/app/common/TestDatabase.java | ||
|---|---|---|
| 38 | 38 |
import eu.etaxonomy.cdm.model.location.Country; |
| 39 | 39 |
import eu.etaxonomy.cdm.model.location.NamedAreaType; |
| 40 | 40 |
import eu.etaxonomy.cdm.model.name.BotanicalName; |
| 41 |
import eu.etaxonomy.cdm.model.name.NomenclaturalCode; |
|
| 42 | 41 |
import eu.etaxonomy.cdm.model.name.Rank; |
| 43 | 42 |
import eu.etaxonomy.cdm.model.name.TaxonNameBase; |
| 44 | 43 |
import eu.etaxonomy.cdm.model.occurrence.DerivedUnit; |
| ... | ... | |
| 67 | 66 |
|
| 68 | 67 |
logger.info("Setting DB " + dbname);
|
| 69 | 68 |
String password = AccountStore.readOrStorePassword(dbname, server, username, null); |
| 70 |
ICdmDataSource datasource = CdmDataSource.NewMySqlInstance(server, dbname, username, password, NomenclaturalCode.ICNAFP);
|
|
| 69 |
ICdmDataSource datasource = CdmDataSource.NewMySqlInstance(server, dbname, username, password); |
|
| 71 | 70 |
return datasource; |
| 72 | 71 |
} |
| 73 | 72 |
|
Also available in: Unified diff
ref #3658 remove nomenclaturalCode