Revision 1a1e2ca4
Added by Andreas Müller 9 months ago
| .gitignore | ||
|---|---|---|
| 11 | 11 |
.externalToolBuilders |
| 12 | 12 |
error.log |
| 13 | 13 |
cdmlib-developer.log |
| 14 |
workbench.xmi |
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| 14 | 15 |
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| 15 | 16 |
src/main/resources/dbscripts |
| 16 | 17 |
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cdmlib-cache/src/main/resources/eu/etaxonomy/cdm/mappings/cdm.map.ser |
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| 19 |
cdmlib-cache/eu.etaxonomy.cdm.model.description.DescriptionElementBase/segments_1 |
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cdmlib-cache/eu.etaxonomy.cdm.model.description.DescriptionElementBase/write.lock |
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cdmlib-cache/eu.etaxonomy.cdm.model.name.TaxonName/segments_1 |
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cdmlib-cache/eu.etaxonomy.cdm.model.name.TaxonName/write.lock |
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cdmlib-cache/eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase/segments_1 |
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cdmlib-cache/eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase/write.lock |
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cdmlib-cache/eu.etaxonomy.cdm.model.taxon.Classification/segments_1 |
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cdmlib-cache/eu.etaxonomy.cdm.model.taxon.Classification/write.lock |
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cdmlib-cache/eu.etaxonomy.cdm.model.taxon.TaxonBase/segments_1 |
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cdmlib-cache/eu.etaxonomy.cdm.model.taxon.TaxonBase/write.lock |
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cdmlib-cache/eu.etaxonomy.cdm.model.taxon.TaxonRelationship/segments_1 |
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cdmlib-cache/eu.etaxonomy.cdm.model.taxon.TaxonRelationship/write.lock |
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| 17 | 32 |
cdmlib-commons/src/main/java/eu/etaxonomy/cdm/common/ResultWrapper.java |
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cdmlib-ext/KmlJaxbMarshallerTest.kml |
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| 18 | 36 |
cdmlib-io/cdmlib-io.uml |
| 19 | 37 |
cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/markup/Markup_OLD.java |
| 20 | 38 |
cdmlib-io/src/test/resources/eu/etaxonomy/cdm/database/schema/PUBLIC.xsd |
| ... | ... | |
| 23 | 41 |
cdmlib-io/src/test/resources/eu/etaxonomy/cdm/io/dwca/in/meta.xml |
| 24 | 42 |
cdmlib-io/src/test/resources/eu/etaxonomy/cdm/io/dwca/in/vernacular.txt |
| 25 | 43 |
cdmlib-io/src/test/resources/eu/etaxonomy/cdm/io/jaxb/CdmImporterTest.xml.edited |
| 44 |
|
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| 26 | 45 |
cdmlib-model/ajcore.*.txt |
| 27 | 46 |
cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/ParserProblemRange.java |
| 28 | 47 |
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| 29 | 48 |
cdmlib-persistence/002_cdm.dll |
| 30 | 49 |
cdmlib-persistence/NewDataSet.xml |
| 31 |
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| 32 | 50 |
cdmlib-persistence/cdmlib-persistence.uml |
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| 34 | 51 |
cdmlib-persistence/src/test/resources/Copy[!!-~]of[!!-~]test.cdm.datasource.xml |
| 35 | 52 |
cdmlib-persistence/src/test/resources/dbscripts/Kopie[!!-~]von[!!-~]001_cdm.ddl |
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| 37 | 53 |
cdmlib-persistence/test.xml |
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| 38 | 55 |
cdmlib-print/*odf_output.odf |
| 39 | 56 |
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cdmlib-services/CleanSweepInsertLoadStrategy-debug.xml |
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| 42 | 58 |
cdmlib-services/cdmlib-services.uml |
| 43 | 59 |
cdmlib-services/src/main/resources/log4j.properties |
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cdmlib-services/src/test/resources/eu/etaxonomy/cdm/integrationTest.xml |
| 46 | 61 |
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| 47 | 62 |
!cdmlib-io/src/main/java/eu/etaxonomy/cdm/io/specimen/abcd206/in/ggbn/.settings |
| 48 | 63 |
!cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/database/data/.settings |
| 49 | 64 |
!cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/database/update/v35_36/.settings |
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workbench.xmi |
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cdmlib-ext/KmlJaxbMarshallerTest.kml |
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cdmlib-cache/eu.etaxonomy.cdm.model.description.DescriptionElementBase/segments_1 |
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cdmlib-cache/eu.etaxonomy.cdm.model.description.DescriptionElementBase/write.lock |
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cdmlib-cache/eu.etaxonomy.cdm.model.name.TaxonName/segments_1 |
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cdmlib-cache/eu.etaxonomy.cdm.model.name.TaxonName/write.lock |
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cdmlib-cache/eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase/segments_1 |
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cdmlib-cache/eu.etaxonomy.cdm.model.occurrence.SpecimenOrObservationBase/write.lock |
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cdmlib-cache/eu.etaxonomy.cdm.model.taxon.Classification/segments_1 |
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cdmlib-cache/eu.etaxonomy.cdm.model.taxon.Classification/write.lock |
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cdmlib-cache/eu.etaxonomy.cdm.model.taxon.TaxonBase/segments_1 |
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cdmlib-cache/eu.etaxonomy.cdm.model.taxon.TaxonBase/write.lock |
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cdmlib-cache/eu.etaxonomy.cdm.model.taxon.TaxonRelationship/segments_1 |
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cdmlib-cache/eu.etaxonomy.cdm.model.taxon.TaxonRelationship/write.lock |
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| cdmlib-cache/pom.xml | ||
|---|---|---|
| 14 | 14 |
<description>CDM Entity Cache</description> |
| 15 | 15 |
<build> |
| 16 | 16 |
<plugins> |
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<plugin> |
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<groupId>org.codehaus.mojo</groupId> |
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<artifactId>exec-maven-plugin</artifactId> |
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<version>3.0.0</version> |
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<executions> |
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<execution> |
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<phase>process-resources</phase> |
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<goals> |
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<goal>exec</goal> |
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</goals> |
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</execution> |
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</executions> |
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<configuration> |
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<executable>java</executable> |
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<arguments> |
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<argument>-classpath</argument> |
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<classpath/> |
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<argument>eu.etaxonomy.cdm.cache.CdmModelCacher</argument> |
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</arguments> |
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<!-- <mainClass>eu.etaxonomy.cdm.cache.CdmModelCacher</mainClass> |
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<cleanupDaemonThreads>true</cleanupDaemonThreads> |
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<stopUnresponsiveDaemonThreads>false</stopUnresponsiveDaemonThreads> --> |
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</configuration> |
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</plugin> |
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| 17 | 41 |
</plugins> |
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<pluginManagement> |
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<plugins> |
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<!--This plugin's configuration is used to store Eclipse m2e settings only. It has no influence on the Maven build itself.--> |
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<plugin> |
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<groupId>org.eclipse.m2e</groupId> |
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<artifactId>lifecycle-mapping</artifactId> |
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<version>1.0.0</version> |
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<configuration> |
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<lifecycleMappingMetadata> |
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<pluginExecutions> |
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<pluginExecution> |
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<pluginExecutionFilter> |
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<groupId>org.codehaus.mojo</groupId> |
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<artifactId>exec-maven-plugin</artifactId> |
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<versionRange>[3.0.0,)</versionRange> |
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<phase>process-resources</phase> |
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<goals> |
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<goal>exec</goal> |
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</goals> |
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</pluginExecutionFilter> |
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<action> |
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<ignore></ignore> |
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</action> |
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</pluginExecution> |
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</pluginExecutions> |
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</lifecycleMappingMetadata> |
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</configuration> |
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</plugin> |
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</plugins> |
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</pluginManagement> |
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| 18 | 72 |
</build> |
| 19 | 73 |
<dependencies> |
| 20 | 74 |
<dependency> |
| cdmlib-cache/src/main/java/eu/etaxonomy/cdm/cache/CdmModelCacher.java | ||
|---|---|---|
| 15 | 15 |
import java.io.ObjectInputStream; |
| 16 | 16 |
import java.io.ObjectOutputStream; |
| 17 | 17 |
import java.lang.reflect.Field; |
| 18 |
import java.net.URISyntaxException; |
|
| 19 | 18 |
import java.net.URL; |
| 19 |
import java.util.Collection; |
|
| 20 | 20 |
import java.util.HashMap; |
| 21 | 21 |
import java.util.Iterator; |
| 22 | 22 |
import java.util.Map; |
| 23 | 23 |
|
| 24 | 24 |
import org.apache.logging.log4j.LogManager; |
| 25 | 25 |
import org.apache.logging.log4j.Logger; |
| 26 |
import org.hibernate.SessionFactory; |
|
| 27 | 26 |
import org.hibernate.boot.Metadata; |
| 28 | 27 |
import org.hibernate.boot.MetadataSources; |
| 29 | 28 |
import org.hibernate.boot.registry.StandardServiceRegistry; |
| ... | ... | |
| 31 | 30 |
import org.hibernate.cfg.Configuration; |
| 32 | 31 |
import org.hibernate.mapping.PersistentClass; |
| 33 | 32 |
import org.hibernate.mapping.Property; |
| 34 |
import org.hibernate.metadata.ClassMetadata; |
|
| 35 | 33 |
import org.hibernate.property.access.spi.Getter; |
| 36 | 34 |
|
| 37 | 35 |
import net.sf.ehcache.Cache; |
| 38 |
import net.sf.ehcache.Element; |
|
| 39 | 36 |
|
| 40 | 37 |
/** |
| 41 | 38 |
* This class is serializing and deserializing the CDM model for performance purposes. |
| ... | ... | |
| 55 | 52 |
public static final String CDM_MAP_SER_FOLDER = "/eu/etaxonomy/cdm/mappings/"; |
| 56 | 53 |
public static final String CDM_MAP_SER_FILE_PATH = CDM_MAP_SER_FOLDER + CDM_MAP_SER_FILE; |
| 57 | 54 |
|
| 58 |
public void cacheGetterFields(Cache cache) throws IOException, ClassNotFoundException, URISyntaxException {
|
|
| 55 |
public void cacheGetterFields(Cache cache) throws IOException, ClassNotFoundException {
|
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| 59 | 56 |
Map<String, CdmModelFieldPropertyFromClass> modelClassMap = loadModelClassMap(); |
| 60 | 57 |
|
| 61 | 58 |
cache.removeAll(); |
| 62 | 59 |
|
| 63 | 60 |
for(Map.Entry<String, CdmModelFieldPropertyFromClass> entry : modelClassMap.entrySet()) {
|
| 64 |
cache.put(new Element(entry.getKey(), entry.getValue())); |
|
| 61 |
cache.put(new net.sf.ehcache.Element(entry.getKey(), entry.getValue()));
|
|
| 65 | 62 |
} |
| 66 | 63 |
} |
| 67 | 64 |
|
| 68 |
public Map<String, CdmModelFieldPropertyFromClass> loadModelClassMap() throws URISyntaxException, IOException, ClassNotFoundException {
|
|
| 65 |
public Map<String, CdmModelFieldPropertyFromClass> loadModelClassMap() throws IOException, ClassNotFoundException {
|
|
| 69 | 66 |
|
| 70 |
// ============== Eclpipse specific ============== // |
|
| 71 |
/*Bundle bundle = Platform.getBundle("eu.etaxonomy.taxeditor.cdmlib");
|
|
| 72 | 67 |
|
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URL modelMapFileBundleURL = bundle.getEntry(CDM_MAP_SER_FILE_PATH); |
|
| 74 |
URL modelMapFileURL = FileLocator.resolve(modelMapFileBundleURL); |
|
| 75 |
String modelMapFilePath = modelMapFileURL.getFile(); |
|
| 76 |
FileInputStream fin = new FileInputStream(modelMapFilePath); |
|
| 77 |
*/ |
|
| 78 | 68 |
InputStream fin = this.getClass().getResourceAsStream(CDM_MAP_SER_FILE_PATH); |
| 79 |
// ==============000000000000000 ============== // |
|
| 80 |
|
|
| 81 | 69 |
ObjectInputStream ois = new ObjectInputStream(fin); |
| 82 | 70 |
@SuppressWarnings("unchecked")
|
| 83 | 71 |
Map<String, CdmModelFieldPropertyFromClass> modelClassMap = (Map<String, CdmModelFieldPropertyFromClass>) ois.readObject(); |
| ... | ... | |
| 92 | 80 |
final StandardServiceRegistry registry = new StandardServiceRegistryBuilder() |
| 93 | 81 |
.configure(hibernateConfigFile) // configures settings from hibernate.cfg.xml |
| 94 | 82 |
.build(); |
| 95 |
SessionFactory sessionFactory = null; |
|
| 83 |
|
|
| 96 | 84 |
Map<String, CdmModelFieldPropertyFromClass> modelClassMap = new HashMap<>(); |
| 97 | 85 |
try {
|
| 98 | 86 |
// ConnectionProvider connectionProvider = registry.getService(ConnectionProvider.class); |
| 99 | 87 |
// DatasourceConnectionProviderImpl providerImpl = registry.getService(DatasourceConnectionProviderImpl.class); |
| 100 | 88 |
|
| 101 | 89 |
Metadata metadata = new MetadataSources( registry ).buildMetadata(); |
| 102 |
sessionFactory = metadata.buildSessionFactory(); |
|
| 103 |
// Configuration configuration = buildConfiguration(HB_CONFIG_FILE_PATH); |
|
| 104 |
|
|
| 105 |
Map<String, ClassMetadata> classMetaDataMap = sessionFactory.getAllClassMetadata(); |
|
| 106 |
// Metadata metadata = new MetadataSources( registry ).getMetadataBuilder().applyImplicitNamingStrategy( ImplicitNamingStrategyJpaCompliantImpl.INSTANCE ).build(); |
|
| 107 |
|
|
| 108 |
for(ClassMetadata classMetaData : classMetaDataMap.values()) {
|
|
| 109 |
Class<?> mappedClass = classMetaData.getMappedClass(); |
|
| 110 |
|
|
| 111 |
String mappedClassName = mappedClass.getName(); |
|
| 112 |
|
|
| 113 |
PersistentClass persistentClass = metadata.getEntityBinding(mappedClassName); |
|
| 114 |
CdmModelFieldPropertyFromClass cmgmfc = new CdmModelFieldPropertyFromClass(mappedClassName); |
|
| 115 |
logger.warn("Adding class : " + mappedClassName + " to cache");
|
|
| 116 |
addGetters(persistentClass, cmgmfc); |
|
| 117 |
modelClassMap.put(mappedClassName, cmgmfc); |
|
| 90 |
Collection<PersistentClass> entityBindings = metadata.getEntityBindings(); |
|
| 91 |
for (PersistentClass persistentClass : entityBindings) {
|
|
| 92 |
Class<?> mappedClass = persistentClass.getMappedClass(); |
|
| 93 |
if (mappedClass != null) {
|
|
| 94 |
handleEntityClass(modelClassMap, metadata, mappedClass); |
|
| 95 |
} |
|
| 118 | 96 |
} |
| 97 |
|
|
| 98 |
// Class<?> epc = entityBindings.iterator().next().getMappedClass(); |
|
| 99 |
|
|
| 100 |
//SessionFactory sessionFactory = metadata.buildSessionFactory(); |
|
| 101 |
// Metamodel metaModel = sessionFactory.getMetamodel(); |
|
| 102 |
// Set<EntityType<?>> entityTypes = metaModel.getEntities(); |
|
| 103 |
// for (EntityType<?> entityType : entityTypes) {
|
|
| 104 |
// Class<?> mappedClass = entityType.getJavaType(); |
|
| 105 |
// handleEntityClass(modelClassMap, metadata, mappedClass); |
|
| 106 |
// } |
|
| 107 |
// sessionFactory.close(); |
|
| 108 |
|
|
| 109 |
// // *************** OLD ***********************/ |
|
| 110 |
// |
|
| 111 |
// Map<String, ClassMetadata> classMetaDataMap = sessionFactory.getAllClassMetadata(); |
|
| 112 |
//// Metadata metadata = new MetadataSources( registry ).getMetadataBuilder().applyImplicitNamingStrategy( ImplicitNamingStrategyJpaCompliantImpl.INSTANCE ).build(); |
|
| 113 |
// |
|
| 114 |
// for(ClassMetadata classMetaData : classMetaDataMap.values()) {
|
|
| 115 |
// Class<?> mappedClass = classMetaData.getMappedClass(); |
|
| 116 |
// |
|
| 117 |
// String mappedClassName = mappedClass.getName(); |
|
| 118 |
// |
|
| 119 |
// PersistentClass persistentClass = metadata.getEntityBinding(mappedClassName); |
|
| 120 |
// CdmModelFieldPropertyFromClass cmgmfc = new CdmModelFieldPropertyFromClass(mappedClassName); |
|
| 121 |
// logger.warn("Adding class : " + mappedClassName + " to cache");
|
|
| 122 |
// addGetters(persistentClass, cmgmfc); |
|
| 123 |
// modelClassMap.put(mappedClassName, cmgmfc); |
|
| 124 |
// } |
|
| 119 | 125 |
} |
| 120 | 126 |
catch (Exception e) {
|
| 121 | 127 |
// The registry would be destroyed by the SessionFactory, but we had trouble building the SessionFactory |
| ... | ... | |
| 126 | 132 |
return modelClassMap; |
| 127 | 133 |
} |
| 128 | 134 |
|
| 135 |
private void handleEntityClass(Map<String, CdmModelFieldPropertyFromClass> modelClassMap, Metadata metadata, |
|
| 136 |
Class<?> mappedClass) {
|
|
| 137 |
String mappedClassName = mappedClass.getName(); |
|
| 138 |
PersistentClass persistentClass = metadata.getEntityBinding(mappedClassName); |
|
| 139 |
CdmModelFieldPropertyFromClass fieldProperties = new CdmModelFieldPropertyFromClass(mappedClassName); |
|
| 140 |
logger.warn("Adding class : " + mappedClassName + " to cache");
|
|
| 141 |
addGetters(persistentClass, fieldProperties); |
|
| 142 |
modelClassMap.put(mappedClassName, fieldProperties); |
|
| 143 |
} |
|
| 144 |
|
|
| 129 | 145 |
public static Configuration buildConfiguration(String hibernateConfigFilePath) {
|
| 130 | 146 |
Configuration configuration = new Configuration().configure(hibernateConfigFilePath); |
| 131 |
configuration.buildMappings(); |
|
| 132 | 147 |
return configuration; |
| 133 | 148 |
} |
| 134 | 149 |
|
| ... | ... | |
| 159 | 174 |
// See also https://dev.e-taxonomy.eu/redmine/projects/edit/wiki/TaxonomicEditorDevelopersGuide#Model-Change-Actions |
| 160 | 175 |
//Note AM: does not fully work for me, but running the main from the IDE works. |
| 161 | 176 |
|
| 177 |
System.out.println("Start CdmModelCacher main.");
|
|
| 162 | 178 |
CdmModelCacher cdmModelCacher = new CdmModelCacher(); |
| 163 | 179 |
Map<String, CdmModelFieldPropertyFromClass> modelClassMap = cdmModelCacher.generateModelClassMap(); |
| 164 | 180 |
try{
|
| 181 |
System.out.println("Model created.");
|
|
| 165 | 182 |
if (!modelClassMap.isEmpty()){
|
| 166 | 183 |
File outFile = new File("src/main/resources/" + CDM_MAP_SER_FILE_PATH);
|
| 167 | 184 |
System.out.println("writing to " + outFile.getAbsolutePath());
|
| ... | ... | |
| 170 | 187 |
oos.writeObject(modelClassMap); |
| 171 | 188 |
oos.close(); |
| 172 | 189 |
System.out.println("CDM Map serialized");
|
| 190 |
System.exit(0); |
|
| 173 | 191 |
}else{
|
| 174 | 192 |
String message = "CDM Map was empty. Model cache update NOT successful"; |
| 175 | 193 |
System.out.println(message); |
| 176 | 194 |
} |
| 177 |
|
|
| 178 | 195 |
}catch(Exception ex){
|
| 179 | 196 |
ex.printStackTrace(); |
| 180 | 197 |
} |
| 198 |
|
|
| 199 |
System.exit(1); |
|
| 181 | 200 |
} |
| 182 |
} |
|
| 201 |
} |
|
| cdmlib-cache/src/main/java/eu/etaxonomy/cdm/cache/CdmModelCacherConnectionProvider.java | ||
|---|---|---|
| 8 | 8 |
*/ |
| 9 | 9 |
package eu.etaxonomy.cdm.cache; |
| 10 | 10 |
|
| 11 |
import java.net.URL; |
|
| 12 |
|
|
| 11 | 13 |
import javax.sql.DataSource; |
| 12 | 14 |
|
| 13 | 15 |
import org.hibernate.engine.jdbc.connections.internal.DatasourceConnectionProviderImpl; |
| ... | ... | |
| 25 | 27 |
* @author a.mueller |
| 26 | 28 |
*/ |
| 27 | 29 |
public class CdmModelCacherConnectionProvider extends DatasourceConnectionProviderImpl{
|
| 28 |
private static final long serialVersionUID = 454393966637126346L; |
|
| 30 |
|
|
| 31 |
private static final long serialVersionUID = 454393966637126346L; |
|
| 29 | 32 |
|
| 30 | 33 |
public CdmModelCacherConnectionProvider() {
|
| 31 |
super(); |
|
| 32 | 34 |
setDataSource(getDataSourcePreliminary()); |
| 33 | 35 |
} |
| 34 | 36 |
|
| 35 | 37 |
private DataSource getDataSourcePreliminary() {
|
| 36 | 38 |
String database = "modelCacher"; |
| 37 |
String path = "C:\\Users\\a.mueller\\.cdmLibrary\\writableResources\\h2\\LocalH2_" + database; |
|
| 39 |
URL location = this.getClass().getProtectionDomain().getCodeSource().getLocation(); |
|
| 40 |
String path = location.getFile().replace("classes/", "tmp/h2/"+database);
|
|
| 41 |
// String path = "C:\\Users\\a.mueller\\.cdmLibrary\\writableResources\\h2\\LocalH2_" + database; |
|
| 38 | 42 |
String username = "sa"; |
| 39 |
CdmDataSource dataSource = CdmDataSource.NewH2EmbeddedInstance("cdmTest", username, "", path);
|
|
| 43 |
CdmDataSource dataSource = CdmDataSource.NewH2EmbeddedInstance("temp", username, "", path);
|
|
| 40 | 44 |
return dataSource; |
| 41 | 45 |
} |
| 42 | 46 |
} |
| cdmlib-cache/src/main/java/eu/etaxonomy/cdm/cache/CdmRemoteCacheManager.java | ||
|---|---|---|
| 9 | 9 |
package eu.etaxonomy.cdm.cache; |
| 10 | 10 |
|
| 11 | 11 |
import java.io.IOException; |
| 12 |
import java.net.URISyntaxException; |
|
| 13 | 12 |
|
| 14 | 13 |
import org.apache.logging.log4j.LogManager; |
| 15 | 14 |
import org.apache.logging.log4j.Logger; |
| ... | ... | |
| 72 | 71 |
CdmModelCacher cmdmc = new CdmModelCacher(); |
| 73 | 72 |
cmdmc.cacheGetterFields(cdmlibModelCache); |
| 74 | 73 |
|
| 75 |
} catch (CacheException | ClassNotFoundException | IOException | URISyntaxException e) {
|
|
| 74 |
} catch (CacheException | ClassNotFoundException | IOException e) {
|
|
| 76 | 75 |
throw new CdmClientCacheException(e); |
| 77 | 76 |
} |
| 78 | 77 |
} |
Also available in: Unified diff
ref #6696 create CdmModelCache during maven and remove cached model from git