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[cdmlib.git] / .gitattributes
diff --git a/.gitattributes b/.gitattributes
index 7f1712ffeae166e917703e70af2d77ffed4b20f8..d9c674b6a0237fc28b13de0a3a87e786afcc7a50 100644 (file)
--- a/.gitattributes
+++ b/.gitattributes
@@ -5,6 +5,7 @@ cdmlib-commons/LICENSE.TXT -text
 cdmlib-commons/README.TXT -text
 cdmlib-commons/pom.xml -text
 cdmlib-commons/src/main/java/eu/etaxonomy/cdm/common/CdmUtils.java -text
 cdmlib-commons/README.TXT -text
 cdmlib-commons/pom.xml -text
 cdmlib-commons/src/main/java/eu/etaxonomy/cdm/common/CdmUtils.java -text
+cdmlib-commons/src/main/java/eu/etaxonomy/cdm/common/UuidGenerator.java -text
 cdmlib-commons/src/main/java/eu/etaxonomy/cdm/common/XmlHelp.java -text
 cdmlib-commons/src/main/resources/MUST-EXIST.txt -text
 cdmlib-commons/src/main/resources/log4j.properties -text
 cdmlib-commons/src/main/java/eu/etaxonomy/cdm/common/XmlHelp.java -text
 cdmlib-commons/src/main/resources/MUST-EXIST.txt -text
 cdmlib-commons/src/main/resources/log4j.properties -text
@@ -55,8 +56,9 @@ cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/EventBase.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/Extension.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/ExtensionType.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/Figure.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/Extension.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/ExtensionType.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/Figure.java -text
-cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/IDefTerm.java -text
+cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/ICdmBase.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/IEvent.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/IEvent.java -text
+cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/ILoadableTerm.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/IMediaDocumented.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/IOriginalSource.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/IReferencedEntity.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/IMediaDocumented.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/IOriginalSource.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/IReferencedEntity.java -text
@@ -92,6 +94,7 @@ cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/WrongTermTypeException.
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/init/DefaultVocabularyStore.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/init/IVocabularyStore.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/init/TermLoader.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/init/DefaultVocabularyStore.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/init/IVocabularyStore.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/init/TermLoader.java -text
+cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/init/TermNotFoundException.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/package-info.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/package.html -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/description/AbsenceTerm.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/package-info.java -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/common/package.html -text
 cdmlib-model/src/main/java/eu/etaxonomy/cdm/model/description/AbsenceTerm.java -text
@@ -226,6 +229,7 @@ cdmlib-model/src/main/resources/terms/Continent.csv -text
 cdmlib-model/src/main/resources/terms/DerivationEventType.csv -text
 cdmlib-model/src/main/resources/terms/HybridRelationshipType.csv -text
 cdmlib-model/src/main/resources/terms/Language.csv -text
 cdmlib-model/src/main/resources/terms/DerivationEventType.csv -text
 cdmlib-model/src/main/resources/terms/HybridRelationshipType.csv -text
 cdmlib-model/src/main/resources/terms/Language.csv -text
+cdmlib-model/src/main/resources/terms/MarkerType.csv -text
 cdmlib-model/src/main/resources/terms/NameRelationshipType.csv -text
 cdmlib-model/src/main/resources/terms/NomenclaturalStatusType.csv -text
 cdmlib-model/src/main/resources/terms/README.TXT -text
 cdmlib-model/src/main/resources/terms/NameRelationshipType.csv -text
 cdmlib-model/src/main/resources/terms/NomenclaturalStatusType.csv -text
 cdmlib-model/src/main/resources/terms/README.TXT -text
@@ -257,20 +261,23 @@ cdmlib-model/src/site/resources/images/uml/package_overview.png -text
 cdmlib-model/src/site/site.xml -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/aspectj/PropertyChangeTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/DatabaseInitialiser.java -text
 cdmlib-model/src/site/site.xml -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/aspectj/PropertyChangeTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/DatabaseInitialiser.java -text
+cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/common/AnnotationTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/common/CdmBaseTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/common/DefinedTermBaseTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/common/CdmBaseTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/common/DefinedTermBaseTest.java -text
+cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/common/MarkerTest.java -text
+cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/common/MarkerTypeTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/common/OrderedTermBaseTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/common/OrderedTermVocabularyTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/common/TermVocabularyTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/common/init/DefaultVocabularyStoreTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/common/init/TermLoaderTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/common/OrderedTermBaseTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/common/OrderedTermVocabularyTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/common/TermVocabularyTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/common/init/DefaultVocabularyStoreTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/common/init/TermLoaderTest.java -text
+cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/description/TextDataTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/name/BotanicalNameTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/name/NonViralNameTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/name/RankTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/name/TaxonNameBaseTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/taxon/TaxonBaseTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/taxon/TaxonTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/name/BotanicalNameTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/name/NonViralNameTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/name/RankTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/name/TaxonNameBaseTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/taxon/TaxonBaseTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/model/taxon/TaxonTest.java -text
-cdmlib-model/src/test/java/eu/etaxonomy/cdm/strategy/BotanicNameCacheStrategyTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/strategy/TaxonNameParserBotanicalNameImplTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/test/function/TestModel.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/test/function/strategy/TestTaxonNameParserBotanicalNameImpl.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/strategy/TaxonNameParserBotanicalNameImplTest.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/test/function/TestModel.java -text
 cdmlib-model/src/test/java/eu/etaxonomy/cdm/test/function/strategy/TestTaxonNameParserBotanicalNameImpl.java -text
@@ -301,11 +308,6 @@ cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/database/types/PostgreSQLDatab
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/database/types/SqlServer2000DatabaseType.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/database/types/SqlServer2005DatabaseType.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/database/types/SybaseDatabaseType.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/database/types/SqlServer2000DatabaseType.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/database/types/SqlServer2005DatabaseType.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/database/types/SybaseDatabaseType.java -text
-cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/AgentDaoImpl.java -text
-cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/CdmEntityDaoBase.java -text
-cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/CdmGenericDaoImpl.java -text
-cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/DaoBase.java -text
-cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/DefinedTermDaoImpl.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/IAgentDao.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/ICdmEntityDao.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/ICdmGenericDao.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/IAgentDao.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/ICdmEntityDao.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/ICdmGenericDao.java -text
@@ -313,14 +315,19 @@ cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/IDefine
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/IIdentifiableDao.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/ITermVocabularyDao.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/ITitledDao.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/IIdentifiableDao.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/ITermVocabularyDao.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/ITitledDao.java -text
-cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/IdentifiableDaoBase.java -text
-cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/common/TermVocabularyDaoImpl.java -text
+cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/hibernate/common/AgentDaoImpl.java -text
+cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/hibernate/common/CdmEntityDaoBase.java -text
+cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/hibernate/common/CdmGenericDaoImpl.java -text
+cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/hibernate/common/DaoBase.java -text
+cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/hibernate/common/DefinedTermDaoImpl.java -text
+cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/hibernate/common/IdentifiableDaoBase.java -text
+cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/hibernate/common/TermVocabularyDaoImpl.java -text
+cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/hibernate/name/TaxonNameDaoHibernateImpl.java -text
+cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/hibernate/reference/ReferenceDaoHibernateImpl.java -text
+cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/hibernate/taxon/TaxonDaoHibernateImpl.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/name/ITaxonNameDao.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/name/ITaxonNameDao.java -text
-cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/name/TaxonNameDaoHibernateImpl.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/reference/IReferenceDao.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/reference/IReferenceDao.java -text
-cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/reference/ReferenceDaoHibernateImpl.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/taxon/ITaxonDao.java -text
 cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/taxon/ITaxonDao.java -text
-cdmlib-persistence/src/main/java/eu/etaxonomy/cdm/persistence/dao/taxon/TaxonDaoHibernateImpl.java -text
 cdmlib-persistence/src/main/resources/eu/etaxonomy/cdm/cdm.datasources.xml -text
 cdmlib-persistence/src/main/resources/eu/etaxonomy/cdm/hsql-datasource.xml -text
 cdmlib-persistence/src/main/resources/eu/etaxonomy/cdm/persistence.xml -text
 cdmlib-persistence/src/main/resources/eu/etaxonomy/cdm/cdm.datasources.xml -text
 cdmlib-persistence/src/main/resources/eu/etaxonomy/cdm/hsql-datasource.xml -text
 cdmlib-persistence/src/main/resources/eu/etaxonomy/cdm/persistence.xml -text
@@ -328,11 +335,12 @@ cdmlib-persistence/src/main/resources/log4j.properties -text
 cdmlib-persistence/src/site/site.xml -text
 cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/database/CdmDataSourceTest.java -text
 cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/database/DatabaseEnumTest.java -text
 cdmlib-persistence/src/site/site.xml -text
 cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/database/CdmDataSourceTest.java -text
 cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/database/DatabaseEnumTest.java -text
-cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/persistence/dao/common/CdmEntityDaoBaseTest.java -text
-cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/persistence/dao/common/DaoBaseTest.java -text
-cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/persistence/dao/common/DefinedTermDaoImplTest.java -text
-cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/persistence/dao/common/IdentifiableDaoBaseTest.java -text
-cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/persistence/dao/taxon/TaxonDaoHibernateImplTest.java -text
+cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/persistence/dao/hibernate/common/CdmEntityDaoBaseTest.java -text
+cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/persistence/dao/hibernate/common/CdmEntityDaoBaseTestClass.java -text
+cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/persistence/dao/hibernate/common/DaoBaseTest.java -text
+cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/persistence/dao/hibernate/common/DefinedTermDaoImplTest.java -text
+cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/persistence/dao/hibernate/common/IdentifiableDaoBaseTest.java -text
+cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/persistence/dao/hibernate/taxon/TaxonDaoHibernateImplTest.java -text
 cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/test/function/Datasource.java -text
 cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/test/function/TestDatabase.java -text
 cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/test/function/TestPersistence.java -text
 cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/test/function/Datasource.java -text
 cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/test/function/TestDatabase.java -text
 cdmlib-persistence/src/test/java/eu/etaxonomy/cdm/test/function/TestPersistence.java -text
@@ -344,6 +352,8 @@ cdmlib-persistence/src/test/resources/eu/etaxonomy/cdm/cdm.datasources.xml -text
 cdmlib-persistence/src/test/resources/eu/etaxonomy/cdm/jdbc-datasource.xml -text
 cdmlib-remote/LICENSE.TXT -text
 cdmlib-remote/README.TXT -text
 cdmlib-persistence/src/test/resources/eu/etaxonomy/cdm/jdbc-datasource.xml -text
 cdmlib-remote/LICENSE.TXT -text
 cdmlib-remote/README.TXT -text
+cdmlib-remote/ide/eclipse/cdmlib-remote[!!-~]-[!!-~]jetty[!!-~]run[!!-~]\[debug\].launch -text
+cdmlib-remote/ide/eclipse/cdmlib-remote[!!-~]-[!!-~]remote[!!-~]debug.launch -text
 cdmlib-remote/pom.xml -text
 cdmlib-remote/src/main/java/carbonfive/spring/web/pathparameter/ParameterizedPathFilter.java -text
 cdmlib-remote/src/main/java/carbonfive/spring/web/pathparameter/ParameterizedPathMatcher.java -text
 cdmlib-remote/pom.xml -text
 cdmlib-remote/src/main/java/carbonfive/spring/web/pathparameter/ParameterizedPathFilter.java -text
 cdmlib-remote/src/main/java/carbonfive/spring/web/pathparameter/ParameterizedPathMatcher.java -text
@@ -434,6 +444,7 @@ cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/TaxonServiceImpl.java
 cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/TermServiceImpl.java -text
 cdmlib-services/src/main/resources/eu/etaxonomy/cdm/services.xml -text
 cdmlib-services/src/site/site.xml -text
 cdmlib-services/src/main/java/eu/etaxonomy/cdm/api/service/TermServiceImpl.java -text
 cdmlib-services/src/main/resources/eu/etaxonomy/cdm/services.xml -text
 cdmlib-services/src/site/site.xml -text
+cdmlib-services/src/test/java/eu/etaxonomy/cdm/api/service/NameServiceImplTest2.java -text
 cdmlib-services/src/test/java/eu/etaxonomy/cdm/api/service/TaxonServiceImplTest.java -text
 cdmlib-services/src/test/java/eu/etaxonomy/cdm/api/service/TermServiceImplTest.java -text
 cdmlib-services/src/test/java/eu/etaxonomy/cdm/test/function/Datasource.java -text
 cdmlib-services/src/test/java/eu/etaxonomy/cdm/api/service/TaxonServiceImplTest.java -text
 cdmlib-services/src/test/java/eu/etaxonomy/cdm/api/service/TermServiceImplTest.java -text
 cdmlib-services/src/test/java/eu/etaxonomy/cdm/test/function/Datasource.java -text