ref #9771 add OntologyExportActivator

diff --git a/app-import/src/main/java/eu/etaxonomy/cdm/app/additivity/OntologyExportActivator.java b/app-import/src/main/java/eu/etaxonomy/cdm/app/additivity/OntologyExportActivator.java
new file mode 100644 (file)
index 0000000..79efcbd
--- /dev/null
+++ b/app-import/src/main/java/eu/etaxonomy/cdm/app/additivity/OntologyExportActivator.java
@@ -0,0 +1,123 @@
+/**
+* Copyright (C) 2022 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.additivity;
+
+import java.util.UUID;
+
+import org.apache.logging.log4j.LogManager;
+import org.apache.logging.log4j.Logger;
+
+import eu.etaxonomy.cdm.app.common.CdmDestinations;
+import eu.etaxonomy.cdm.common.monitor.IProgressMonitor;
+import eu.etaxonomy.cdm.database.DbSchemaValidation;
+import eu.etaxonomy.cdm.database.ICdmDataSource;
+import eu.etaxonomy.cdm.filter.VocabularyFilter;
+import eu.etaxonomy.cdm.io.cdm2cdm.Cdm2CdmImportConfigurator;
+import eu.etaxonomy.cdm.io.common.CdmDefaultImport;
+import eu.etaxonomy.cdm.io.common.IImportConfigurator.CHECK;
+import eu.etaxonomy.cdm.model.reference.Reference;
+
+/**
+ * @author a.mueller
+ * @since 31.08.2022
+ */
+public class OntologyExportActivator {
+
+    @SuppressWarnings("unused")
+    private static final Logger logger = LogManager.getLogger();
+
+//    static final ICdmDataSource source = CdmDestinations.cdm_production_greece_bupleurum();
+    static final ICdmDataSource source = CdmDestinations.cdm_local_greece_bupleurum();
+
+    static final ICdmDataSource cdmDestination = CdmDestinations.cdm_local_terms();
+//    static final ICdmDataSource cdmDestination = CdmDestinations.cdm_local_cdmtest_mysql();
+
+//    static final String sourceRefTitle = "Flora of Greece";
+//    static final UUID sourceRefUuid = UUID.fromString("f88e33e5-1f6a-463e-b6fd-220d5e93d810");
+
+    static final DbSchemaValidation schemaValidation = DbSchemaValidation.VALIDATE;
+
+    static final UUID uuidGenericStructures = UUID.fromString("4c13949e-50f5-461b-83df-21fec53437e8");
+    static final UUID uuidTermporalModifiers = UUID.fromString("004a0b82-feb1-4c96-8542-26f72c740555");
+
+    //check - import
+    static final CHECK check = CHECK.IMPORT_WITHOUT_CHECK;
+
+    static final int partitionSize = 5000;
+
+    static final boolean doVocabularies = true;
+    static final boolean addSources = false;
+    static final boolean removeImportSources = true;
+
+    //defaults
+    static final boolean doTaxa = false;
+    static final boolean doDescriptions = false;
+    static final boolean doConcurrent = false;
+    static final boolean registerAuditing = true;
+
+// ***************** ALL ************************************************//
+
+//    UUID uuidBupleurumTaxonNodeFilter = UUID.fromString("51e768cf-321b-4108-8bee-46143996b033");
+
+    private void doImport(ICdmDataSource source, ICdmDataSource destination, DbSchemaValidation hbm2dll){
+
+        String importFrom = " import from "+ source.getDatabase() + " to "+ destination.getDatabase() + " ...";
+        System.out.println("Start"+importFrom);
+
+        Cdm2CdmImportConfigurator config = Cdm2CdmImportConfigurator.NewInstace(source, destination);
+        VocabularyFilter vocFilter = VocabularyFilter.NewInstance();
+        vocFilter.orVocabulary(uuidGenericStructures);
+//        vocFilter.orVocabulary(uuidTermporalModifiers);
+        config.setVocabularyFilter(vocFilter);
+
+
+        config.setDoTaxa(doTaxa);
+        config.setDoDescriptions(doDescriptions);
+        config.setDoVocabularies(doVocabularies);
+        config.setAddSources(addSources);
+        config.setSourceReference(getSourceRefNull());
+        config.setRemoveImportSources(removeImportSources);
+
+        IProgressMonitor monitor = config.getProgressMonitor();
+
+        config.setDbSchemaValidation(hbm2dll);
+//        config.getTaxonNodeFilter().orSubtree(uuidBupleurumTaxonNodeFilter);
+//        config.getTaxonNodeFilter().setOrder(ORDER.TREEINDEX);
+
+        config.setCheck(check);
+//        config.setRecordsPerTransaction(partitionSize);
+
+        config.setRegisterAuditing(registerAuditing);
+
+        // invoke import
+        CdmDefaultImport<Cdm2CdmImportConfigurator> myImport = new CdmDefaultImport<>();
+        myImport.invoke(config);
+
+        System.out.println("End" + importFrom);
+    }
+
+
+    private Reference getSourceRefNull() {
+        return null;
+    }
+//    private Reference getSourceRef() {
+//        Reference ref = ReferenceFactory.newDatabase();
+//        ref.setTitle(sourceRefTitle);
+//        ref.setDatePublished(VerbatimTimePeriod.NewVerbatimInstance(Calendar.getInstance()));
+//        ref.setUuid(sourceRefUuid);
+//        return ref;
+//    }
+
+    public static void main(String[] args) {
+        ICdmDataSource cdmDB = CdmDestinations.chooseDestination(args) != null ? CdmDestinations.chooseDestination(args) : cdmDestination;
+        OntologyExportActivator myImport = new OntologyExportActivator();
+        myImport.doImport(source, cdmDB, schemaValidation);
+        System.exit(0);
+    }
+}

diff --git a/app-import/src/main/java/eu/etaxonomy/cdm/app/common/CdmDestinations.java b/app-import/src/main/java/eu/etaxonomy/cdm/app/common/CdmDestinations.java
index dfd6de27a9b98a79155f04f3f53db0eb998aeed9..39b83aee0740ff41770dbf66e741d197791ed6e6 100644 (file)
--- a/app-import/src/main/java/eu/etaxonomy/cdm/app/common/CdmDestinations.java
+++ b/app-import/src/main/java/eu/etaxonomy/cdm/app/common/CdmDestinations.java
@@ -97,6 +97,22 @@ public class CdmDestinations {
         return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null);
     }
 
+    public static ICdmDataSource cdm_local_terms(){
+        DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL;
+        String cdmServer = "127.0.0.1";
+        String cdmDB = "cdm_local_terms";
+        String cdmUserName = "edit";
+        return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null);
+    }
+
+    public static ICdmDataSource cdm_local_greece_bupleurum(){
+        DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL;
+        String cdmServer = "127.0.0.1";
+        String cdmDB = "cdm_local_greece_bupleurum";
+        String cdmUserName = "edit";
+        return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null);
+    }
+
     public static ICdmDataSource cdm_local_uzbekistan(){
         DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL;
         String cdmServer = "127.0.0.1";
@@ -417,6 +433,14 @@ public class CdmDestinations {
         return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null);
     }
 
+    public static ICdmDataSource cdm_production_greece_bupleurum(){
+        DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL;
+        String cdmServer = "160.45.63.171";
+        String cdmDB = "cdm_production_greece_bupleurum";
+        String cdmUserName = "edit";
+        return makeDestination(dbType, cdmServer, cdmDB, -1, cdmUserName, null);
+    }
+
     public static ICdmDataSource cdm_production_lichenes(){
         DatabaseTypeEnum dbType = DatabaseTypeEnum.MySQL;
         String cdmServer = "160.45.63.171";