From e90ecd4ab4b64fe70601ccb92cfbf89ed61b600b Mon Sep 17 00:00:00 2001 From: felmer <felmer> Date: Wed, 26 Jan 2011 08:34:46 +0000 Subject: [PATCH] LMS-1949 IPropertiesBatchManager changed and moved from plugin.generic to generic to fix wrong dependency SVN: 19592 --- .../generic/server/AbstractCommonServer.java | 2 +- .../generic/server/AbstractServer.java | 8 +++--- .../openbis/generic/server/CommonServer.java | 2 +- .../openbis/generic/server/ETLService.java | 2 +- .../generic/server/TrackingServer.java | 2 +- .../api/v1/GeneralInformationService.java | 2 +- .../business}/IPropertiesBatchManager.java | 10 ++++--- .../business}/PropertiesBatchManager.java | 27 +++++-------------- .../plugin/demo/server/DemoServer.java | 2 +- .../plugin/generic/server/GenericServer.java | 3 ++- .../plugin/query/server/QueryServer.java | 2 +- .../shared/AbstractServerTestCase.java | 2 +- .../generic/shared/CommonTestUtils.java | 2 ++ .../plugin/demo/server/DemoServerTest.java | 2 +- .../generic/server/GenericServerTest.java | 19 +++---------- .../phosphonetx/server/PhosphoNetXServer.java | 2 +- .../server/ProteomicsDataServiceInternal.java | 2 +- .../server/api/v1/ProteomicsDataService.java | 2 +- .../screening/server/ScreeningServer.java | 2 +- 19 files changed, 37 insertions(+), 58 deletions(-) rename openbis/source/java/ch/systemsx/cisd/openbis/{plugin/generic/server => generic/server/business}/IPropertiesBatchManager.java (68%) rename openbis/source/java/ch/systemsx/cisd/openbis/{plugin/generic/server => generic/server/business}/PropertiesBatchManager.java (85%) diff --git a/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/AbstractCommonServer.java b/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/AbstractCommonServer.java index eff5902fbc3..62c0fd1f111 100644 --- a/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/AbstractCommonServer.java +++ b/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/AbstractCommonServer.java @@ -25,6 +25,7 @@ import ch.systemsx.cisd.authentication.IAuthenticationService; import ch.systemsx.cisd.authentication.ISessionManager; import ch.systemsx.cisd.authentication.Principal; import ch.systemsx.cisd.common.exceptions.UserFailureException; +import ch.systemsx.cisd.openbis.generic.server.business.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.generic.server.business.bo.ICommonBusinessObjectFactory; import ch.systemsx.cisd.openbis.generic.server.business.bo.IExternalDataTable; import ch.systemsx.cisd.openbis.generic.server.business.bo.datasetlister.IDatasetLister; @@ -33,7 +34,6 @@ import ch.systemsx.cisd.openbis.generic.shared.IServer; import ch.systemsx.cisd.openbis.generic.shared.basic.dto.DisplaySettings; import ch.systemsx.cisd.openbis.generic.shared.dto.PersonPE; import ch.systemsx.cisd.openbis.generic.shared.dto.Session; -import ch.systemsx.cisd.openbis.plugin.generic.server.IPropertiesBatchManager; /** * @author Franz-Josef Elmer diff --git a/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/AbstractServer.java b/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/AbstractServer.java index bd6dfa4938e..c58184e8557 100644 --- a/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/AbstractServer.java +++ b/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/AbstractServer.java @@ -30,6 +30,8 @@ import ch.systemsx.cisd.authentication.Principal; import ch.systemsx.cisd.common.exceptions.InvalidSessionException; import ch.systemsx.cisd.common.exceptions.UserFailureException; import ch.systemsx.cisd.common.spring.AbstractServiceWithLogger; +import ch.systemsx.cisd.openbis.generic.server.business.IPropertiesBatchManager; +import ch.systemsx.cisd.openbis.generic.server.business.PropertiesBatchManager; import ch.systemsx.cisd.openbis.generic.server.dataaccess.DynamicPropertyEvaluationOperation; import ch.systemsx.cisd.openbis.generic.server.dataaccess.IDAOFactory; import ch.systemsx.cisd.openbis.generic.server.dataaccess.IDynamicPropertyEvaluationScheduler; @@ -64,8 +66,6 @@ import ch.systemsx.cisd.openbis.generic.shared.dto.SpacePE; import ch.systemsx.cisd.openbis.generic.shared.translator.GridCustomExpressionTranslator.GridCustomColumnTranslator; import ch.systemsx.cisd.openbis.generic.shared.util.HibernateUtils; import ch.systemsx.cisd.openbis.generic.shared.util.ServerUtils; -import ch.systemsx.cisd.openbis.plugin.generic.server.IPropertiesBatchManager; -import ch.systemsx.cisd.openbis.plugin.generic.server.PropertiesBatchManager; /** * An <i>abstract</i> {@link IServer} implementation. @@ -127,7 +127,7 @@ public abstract class AbstractServer<T> extends AbstractServiceWithLogger<T> imp { if (propertiesBatchManager == null) { - propertiesBatchManager = new PropertiesBatchManager(daoFactory); + propertiesBatchManager = new PropertiesBatchManager(); } return propertiesBatchManager; } @@ -446,7 +446,6 @@ public abstract class AbstractServer<T> extends AbstractServiceWithLogger<T> imp protected void registerSamples(final Session session, final NewSamplesWithTypes newSamplesWithType, PersonPE registratorOrNull) { - getPropertiesBatchManager().manageProperties(newSamplesWithType); final SampleType sampleType = newSamplesWithType.getSampleType(); final List<NewSample> newSamples = newSamplesWithType.getNewSamples(); assert sampleType != null : "Unspecified sample type."; @@ -466,6 +465,7 @@ public abstract class AbstractServer<T> extends AbstractServiceWithLogger<T> imp throw UserFailureException.fromTemplate("Sample type with code '%s' does not exist.", sampleTypeCode); } + getPropertiesBatchManager().manageProperties(sampleTypePE, newSamplesWithType); getSampleTypeSlaveServerPlugin(sampleTypePE).registerSamples(session, newSamples, registratorOrNull); } diff --git a/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/CommonServer.java b/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/CommonServer.java index 14618d72957..5c6e2db4e13 100644 --- a/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/CommonServer.java +++ b/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/CommonServer.java @@ -38,6 +38,7 @@ import ch.systemsx.cisd.authentication.ISessionManager; import ch.systemsx.cisd.authentication.Principal; import ch.systemsx.cisd.common.exceptions.UserFailureException; import ch.systemsx.cisd.common.spring.IInvocationLoggerContext; +import ch.systemsx.cisd.openbis.generic.server.business.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.generic.server.business.bo.DataAccessExceptionTranslator; import ch.systemsx.cisd.openbis.generic.server.business.bo.IAttachmentBO; import ch.systemsx.cisd.openbis.generic.server.business.bo.IAuthorizationGroupBO; @@ -209,7 +210,6 @@ import ch.systemsx.cisd.openbis.generic.shared.translator.VocabularyTermTranslat import ch.systemsx.cisd.openbis.generic.shared.translator.VocabularyTranslator; import ch.systemsx.cisd.openbis.generic.shared.util.EntityHelper; import ch.systemsx.cisd.openbis.generic.shared.util.HibernateUtils; -import ch.systemsx.cisd.openbis.plugin.generic.server.IPropertiesBatchManager; public final class CommonServer extends AbstractCommonServer<ICommonServerForInternalUse> implements ICommonServerForInternalUse diff --git a/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/ETLService.java b/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/ETLService.java index fbb836599f4..9a07a05010c 100644 --- a/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/ETLService.java +++ b/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/ETLService.java @@ -32,6 +32,7 @@ import ch.systemsx.cisd.common.exceptions.ConfigurationFailureException; import ch.systemsx.cisd.common.exceptions.UserFailureException; import ch.systemsx.cisd.common.spring.IInvocationLoggerContext; import ch.systemsx.cisd.openbis.generic.server.business.IDataStoreServiceFactory; +import ch.systemsx.cisd.openbis.generic.server.business.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.generic.server.business.bo.ICommonBusinessObjectFactory; import ch.systemsx.cisd.openbis.generic.server.business.bo.IExperimentBO; import ch.systemsx.cisd.openbis.generic.server.business.bo.IExternalDataBO; @@ -117,7 +118,6 @@ import ch.systemsx.cisd.openbis.generic.shared.translator.SampleTranslator; import ch.systemsx.cisd.openbis.generic.shared.translator.SampleTypeTranslator; import ch.systemsx.cisd.openbis.generic.shared.translator.VocabularyTermTranslator; import ch.systemsx.cisd.openbis.generic.shared.util.HibernateUtils; -import ch.systemsx.cisd.openbis.plugin.generic.server.IPropertiesBatchManager; /** * @author Franz-Josef Elmer diff --git a/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/TrackingServer.java b/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/TrackingServer.java index 1d0cfd79de2..e328de81b89 100644 --- a/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/TrackingServer.java +++ b/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/TrackingServer.java @@ -23,6 +23,7 @@ import java.util.Map; import ch.systemsx.cisd.authentication.ISessionManager; import ch.systemsx.cisd.common.spring.IInvocationLoggerContext; +import ch.systemsx.cisd.openbis.generic.server.business.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.generic.server.business.bo.ICommonBusinessObjectFactory; import ch.systemsx.cisd.openbis.generic.server.business.bo.datasetlister.IDatasetLister; import ch.systemsx.cisd.openbis.generic.server.business.bo.samplelister.ISampleLister; @@ -36,7 +37,6 @@ import ch.systemsx.cisd.openbis.generic.shared.basic.dto.Sample; import ch.systemsx.cisd.openbis.generic.shared.basic.dto.TrackingDataSetCriteria; import ch.systemsx.cisd.openbis.generic.shared.basic.dto.TrackingSampleCriteria; import ch.systemsx.cisd.openbis.generic.shared.dto.Session; -import ch.systemsx.cisd.openbis.plugin.generic.server.IPropertiesBatchManager; public final class TrackingServer extends AbstractServer<ITrackingServer> implements ITrackingServer diff --git a/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/api/v1/GeneralInformationService.java b/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/api/v1/GeneralInformationService.java index 62c387ad358..d02ac16ed18 100644 --- a/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/api/v1/GeneralInformationService.java +++ b/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/api/v1/GeneralInformationService.java @@ -34,6 +34,7 @@ import ch.systemsx.cisd.common.exceptions.EnvironmentFailureException; import ch.systemsx.cisd.common.exceptions.UserFailureException; import ch.systemsx.cisd.common.spring.IInvocationLoggerContext; import ch.systemsx.cisd.openbis.generic.server.AbstractServer; +import ch.systemsx.cisd.openbis.generic.server.business.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.generic.server.dataaccess.IDAOFactory; import ch.systemsx.cisd.openbis.generic.server.dataaccess.IDataStoreDAO; import ch.systemsx.cisd.openbis.generic.server.dataaccess.IDatabaseInstanceDAO; @@ -64,7 +65,6 @@ import ch.systemsx.cisd.openbis.generic.shared.dto.Session; import ch.systemsx.cisd.openbis.generic.shared.dto.SessionContextDTO; import ch.systemsx.cisd.openbis.generic.shared.dto.SpacePE; import ch.systemsx.cisd.openbis.generic.shared.dto.identifier.ProjectIdentifier; -import ch.systemsx.cisd.openbis.plugin.generic.server.IPropertiesBatchManager; /** * @author Franz-Josef Elmer diff --git a/openbis/source/java/ch/systemsx/cisd/openbis/plugin/generic/server/IPropertiesBatchManager.java b/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/business/IPropertiesBatchManager.java similarity index 68% rename from openbis/source/java/ch/systemsx/cisd/openbis/plugin/generic/server/IPropertiesBatchManager.java rename to openbis/source/java/ch/systemsx/cisd/openbis/generic/server/business/IPropertiesBatchManager.java index 465030353ed..69112f48816 100644 --- a/openbis/source/java/ch/systemsx/cisd/openbis/plugin/generic/server/IPropertiesBatchManager.java +++ b/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/business/IPropertiesBatchManager.java @@ -14,14 +14,16 @@ * limitations under the License. */ -package ch.systemsx.cisd.openbis.plugin.generic.server; +package ch.systemsx.cisd.openbis.generic.server.business; import java.util.List; import ch.systemsx.cisd.openbis.generic.shared.basic.dto.NewExperimentsWithType; import ch.systemsx.cisd.openbis.generic.shared.basic.dto.NewMaterial; import ch.systemsx.cisd.openbis.generic.shared.basic.dto.NewSamplesWithTypes; +import ch.systemsx.cisd.openbis.generic.shared.dto.ExperimentTypePE; import ch.systemsx.cisd.openbis.generic.shared.dto.MaterialTypePE; +import ch.systemsx.cisd.openbis.generic.shared.dto.SampleTypePE; /** * Interface of classes which manage managed properties in batch updates. @@ -30,9 +32,9 @@ import ch.systemsx.cisd.openbis.generic.shared.dto.MaterialTypePE; */ public interface IPropertiesBatchManager { - public void manageProperties(NewSamplesWithTypes newSamplesWithTypes); + public void manageProperties(SampleTypePE sampleType, NewSamplesWithTypes newSamplesWithTypes); - public void manageProperties(NewExperimentsWithType experiments); + public void manageProperties(ExperimentTypePE experimentType, NewExperimentsWithType experiments); - public void manageProperties(MaterialTypePE materialTypePE, List<NewMaterial> newMaterials); + public void manageProperties(MaterialTypePE materialType, List<NewMaterial> newMaterials); } \ No newline at end of file diff --git a/openbis/source/java/ch/systemsx/cisd/openbis/plugin/generic/server/PropertiesBatchManager.java b/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/business/PropertiesBatchManager.java similarity index 85% rename from openbis/source/java/ch/systemsx/cisd/openbis/plugin/generic/server/PropertiesBatchManager.java rename to openbis/source/java/ch/systemsx/cisd/openbis/generic/server/business/PropertiesBatchManager.java index 1998588bdd7..37dc98f544c 100644 --- a/openbis/source/java/ch/systemsx/cisd/openbis/plugin/generic/server/PropertiesBatchManager.java +++ b/openbis/source/java/ch/systemsx/cisd/openbis/generic/server/business/PropertiesBatchManager.java @@ -14,7 +14,7 @@ * limitations under the License. */ -package ch.systemsx.cisd.openbis.plugin.generic.server; +package ch.systemsx.cisd.openbis.generic.server.business; import java.util.ArrayList; import java.util.HashMap; @@ -24,8 +24,6 @@ import java.util.Map.Entry; import java.util.Set; import ch.systemsx.cisd.common.evaluator.EvaluatorException; -import ch.systemsx.cisd.openbis.generic.server.dataaccess.IDAOFactory; -import ch.systemsx.cisd.openbis.generic.server.dataaccess.ISampleTypeDAO; import ch.systemsx.cisd.openbis.generic.shared.basic.BasicConstant; import ch.systemsx.cisd.openbis.generic.shared.basic.dto.DataType; import ch.systemsx.cisd.openbis.generic.shared.basic.dto.DataTypeCode; @@ -42,7 +40,6 @@ import ch.systemsx.cisd.openbis.generic.shared.dto.ExperimentTypePE; import ch.systemsx.cisd.openbis.generic.shared.dto.MaterialTypePE; import ch.systemsx.cisd.openbis.generic.shared.dto.SampleTypePE; import ch.systemsx.cisd.openbis.generic.shared.dto.ScriptPE; -import ch.systemsx.cisd.openbis.generic.shared.dto.properties.EntityKind; import ch.systemsx.cisd.openbis.generic.shared.managed_property.ManagedPropertyEvaluator; /** @@ -52,38 +49,26 @@ import ch.systemsx.cisd.openbis.generic.shared.managed_property.ManagedPropertyE */ public class PropertiesBatchManager implements IPropertiesBatchManager { - final IDAOFactory daoFactory; - - public PropertiesBatchManager(IDAOFactory daoFactory) - { - this.daoFactory = daoFactory; - } - - public void manageProperties(NewSamplesWithTypes newSamplesWithTypes) + public void manageProperties(SampleTypePE sampleType, NewSamplesWithTypes newSamplesWithTypes) { - ISampleTypeDAO sampleTypeDAO = daoFactory.getSampleTypeDAO(); - String code = newSamplesWithTypes.getSampleType().getCode(); - SampleTypePE sampleType = sampleTypeDAO.tryFindSampleTypeByCode(code); Set<? extends EntityTypePropertyTypePE> sampleTypePropertyTypes = sampleType.getSampleTypePropertyTypes(); managePropertiesBeans(newSamplesWithTypes.getNewSamples(), sampleTypePropertyTypes); } - public void manageProperties(NewExperimentsWithType experiments) + public void manageProperties(ExperimentTypePE experimentType, NewExperimentsWithType experiments) { - String code = experiments.getExperimentTypeCode(); - ExperimentTypePE entityType = (ExperimentTypePE) daoFactory.getEntityTypeDAO(EntityKind.EXPERIMENT).tryToFindEntityTypeByCode(code); Set<? extends EntityTypePropertyTypePE> entityTypePropertyTypes = - entityType.getExperimentTypePropertyTypes(); + experimentType.getExperimentTypePropertyTypes(); managePropertiesBeans(experiments.getNewExperiments(), entityTypePropertyTypes); } - public void manageProperties(MaterialTypePE materialTypePE, List<NewMaterial> newMaterials) + public void manageProperties(MaterialTypePE materialType, List<NewMaterial> newMaterials) { Set<? extends EntityTypePropertyTypePE> entityTypePropertyTypes = - materialTypePE.getMaterialTypePropertyTypes(); + materialType.getMaterialTypePropertyTypes(); managePropertiesBeans(newMaterials, entityTypePropertyTypes); } diff --git a/openbis/source/java/ch/systemsx/cisd/openbis/plugin/demo/server/DemoServer.java b/openbis/source/java/ch/systemsx/cisd/openbis/plugin/demo/server/DemoServer.java index c8412ff0fea..c0689bb4b08 100644 --- a/openbis/source/java/ch/systemsx/cisd/openbis/plugin/demo/server/DemoServer.java +++ b/openbis/source/java/ch/systemsx/cisd/openbis/plugin/demo/server/DemoServer.java @@ -27,6 +27,7 @@ import ch.systemsx.cisd.authentication.ISessionManager; import ch.systemsx.cisd.common.exceptions.NotImplementedException; import ch.systemsx.cisd.common.spring.IInvocationLoggerContext; import ch.systemsx.cisd.openbis.generic.server.AbstractServer; +import ch.systemsx.cisd.openbis.generic.server.business.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.generic.server.business.bo.ISampleBO; import ch.systemsx.cisd.openbis.generic.server.dataaccess.IDAOFactory; import ch.systemsx.cisd.openbis.generic.server.plugin.IDataSetTypeSlaveServerPlugin; @@ -42,7 +43,6 @@ import ch.systemsx.cisd.openbis.generic.shared.dto.identifier.SampleIdentifier; import ch.systemsx.cisd.openbis.generic.shared.translator.SampleTranslator; import ch.systemsx.cisd.openbis.plugin.demo.shared.IDemoServer; import ch.systemsx.cisd.openbis.plugin.demo.shared.ResourceNames; -import ch.systemsx.cisd.openbis.plugin.generic.server.IPropertiesBatchManager; /** * The concrete {@link IDemoServer} implementation. diff --git a/openbis/source/java/ch/systemsx/cisd/openbis/plugin/generic/server/GenericServer.java b/openbis/source/java/ch/systemsx/cisd/openbis/plugin/generic/server/GenericServer.java index 58337ef9c66..51452c9d3ce 100644 --- a/openbis/source/java/ch/systemsx/cisd/openbis/plugin/generic/server/GenericServer.java +++ b/openbis/source/java/ch/systemsx/cisd/openbis/plugin/generic/server/GenericServer.java @@ -41,6 +41,7 @@ import ch.systemsx.cisd.common.spring.IInvocationLoggerContext; import ch.systemsx.cisd.openbis.generic.server.AbstractServer; import ch.systemsx.cisd.openbis.generic.server.batch.BatchOperationExecutor; import ch.systemsx.cisd.openbis.generic.server.batch.IBatchOperation; +import ch.systemsx.cisd.openbis.generic.server.business.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.generic.server.business.bo.IExperimentBO; import ch.systemsx.cisd.openbis.generic.server.business.bo.IExternalDataBO; import ch.systemsx.cisd.openbis.generic.server.business.bo.IMaterialBO; @@ -831,7 +832,6 @@ public final class GenericServer extends AbstractServer<IGenericServer> implemen assert sessionToken != null : "Unspecified session token."; assert experiments.getExperimentTypeCode() != null : "Experiments type not specified"; assert experiments.getNewExperiments() != null : "Experiments collection not specified"; - getPropertiesBatchManager().manageProperties(experiments); final Session session = getSession(sessionToken); final List<NewBasicExperiment> newExperiments = experiments.getNewExperiments(); @@ -848,6 +848,7 @@ public final class GenericServer extends AbstractServer<IGenericServer> implemen throw UserFailureException.fromTemplate( "Experiment type with code '%s' does not exist.", experimentTypePE); } + getPropertiesBatchManager().manageProperties(experimentTypePE, experiments); BatchOperationExecutor.executeInBatches(new ExperimentBatchRegistration( businessObjectFactory.createExperimentTable(session), newExperiments, experimentTypePE)); diff --git a/openbis/source/java/ch/systemsx/cisd/openbis/plugin/query/server/QueryServer.java b/openbis/source/java/ch/systemsx/cisd/openbis/plugin/query/server/QueryServer.java index 9ab7ab75cb7..db219b7d4d9 100644 --- a/openbis/source/java/ch/systemsx/cisd/openbis/plugin/query/server/QueryServer.java +++ b/openbis/source/java/ch/systemsx/cisd/openbis/plugin/query/server/QueryServer.java @@ -33,6 +33,7 @@ import ch.systemsx.cisd.authentication.ISessionManager; import ch.systemsx.cisd.common.exceptions.UserFailureException; import ch.systemsx.cisd.common.spring.IInvocationLoggerContext; import ch.systemsx.cisd.openbis.generic.server.AbstractServer; +import ch.systemsx.cisd.openbis.generic.server.business.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.generic.server.business.bo.DataAccessExceptionTranslator; import ch.systemsx.cisd.openbis.generic.server.dataaccess.IDAOFactory; import ch.systemsx.cisd.openbis.generic.server.dataaccess.IQueryDAO; @@ -44,7 +45,6 @@ import ch.systemsx.cisd.openbis.generic.shared.basic.dto.QueryType; import ch.systemsx.cisd.openbis.generic.shared.basic.dto.TableModel; import ch.systemsx.cisd.openbis.generic.shared.dto.QueryPE; import ch.systemsx.cisd.openbis.generic.shared.dto.Session; -import ch.systemsx.cisd.openbis.plugin.generic.server.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.plugin.query.shared.DatabaseDefinition; import ch.systemsx.cisd.openbis.plugin.query.shared.IQueryDatabaseDefinitionProvider; import ch.systemsx.cisd.openbis.plugin.query.shared.IQueryServer; diff --git a/openbis/sourceTest/java/ch/systemsx/cisd/openbis/generic/shared/AbstractServerTestCase.java b/openbis/sourceTest/java/ch/systemsx/cisd/openbis/generic/shared/AbstractServerTestCase.java index 368e80c69d8..3d1df01112f 100644 --- a/openbis/sourceTest/java/ch/systemsx/cisd/openbis/generic/shared/AbstractServerTestCase.java +++ b/openbis/sourceTest/java/ch/systemsx/cisd/openbis/generic/shared/AbstractServerTestCase.java @@ -32,6 +32,7 @@ import ch.systemsx.cisd.authentication.Principal; import ch.systemsx.cisd.common.logging.BufferedAppender; import ch.systemsx.cisd.common.logging.LogInitializer; import ch.systemsx.cisd.openbis.generic.server.CommonServerTest.PersonWithDisplaySettingsMatcher; +import ch.systemsx.cisd.openbis.generic.server.business.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.generic.server.business.bo.IEntityTypeBO; import ch.systemsx.cisd.openbis.generic.server.business.bo.IEntityTypePropertyTypeBO; import ch.systemsx.cisd.openbis.generic.server.business.bo.IExperimentBO; @@ -77,7 +78,6 @@ import ch.systemsx.cisd.openbis.generic.shared.dto.PersonPE; import ch.systemsx.cisd.openbis.generic.shared.dto.ProjectPE; import ch.systemsx.cisd.openbis.generic.shared.dto.Session; import ch.systemsx.cisd.openbis.generic.shared.dto.SpacePE; -import ch.systemsx.cisd.openbis.plugin.generic.server.IPropertiesBatchManager; /** * An <i>abstract</i> test infrastructure for {@link IServer} implementations. diff --git a/openbis/sourceTest/java/ch/systemsx/cisd/openbis/generic/shared/CommonTestUtils.java b/openbis/sourceTest/java/ch/systemsx/cisd/openbis/generic/shared/CommonTestUtils.java index 311a954962a..0553e457ef1 100644 --- a/openbis/sourceTest/java/ch/systemsx/cisd/openbis/generic/shared/CommonTestUtils.java +++ b/openbis/sourceTest/java/ch/systemsx/cisd/openbis/generic/shared/CommonTestUtils.java @@ -268,6 +268,8 @@ public class CommonTestUtils public static final SampleTypePE createSampleType() { final SampleTypePE sampleTypePE = new SampleTypePE(); + sampleTypePE.setId(1234567890123456L); + sampleTypePE.setDatabaseInstance(createHomeDatabaseInstance()); sampleTypePE.setCode(CommonTestUtils.SAMPLE_TYPE); sampleTypePE.setGeneratedFromHierarchyDepth(0); sampleTypePE.setContainerHierarchyDepth(0); diff --git a/openbis/sourceTest/java/ch/systemsx/cisd/openbis/plugin/demo/server/DemoServerTest.java b/openbis/sourceTest/java/ch/systemsx/cisd/openbis/plugin/demo/server/DemoServerTest.java index 58f53559844..b3fe8406dc6 100644 --- a/openbis/sourceTest/java/ch/systemsx/cisd/openbis/plugin/demo/server/DemoServerTest.java +++ b/openbis/sourceTest/java/ch/systemsx/cisd/openbis/plugin/demo/server/DemoServerTest.java @@ -19,11 +19,11 @@ package ch.systemsx.cisd.openbis.plugin.demo.server; import org.testng.annotations.BeforeMethod; import ch.rinn.restrictions.Friend; +import ch.systemsx.cisd.openbis.generic.server.business.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.generic.server.plugin.IDataSetTypeSlaveServerPlugin; import ch.systemsx.cisd.openbis.generic.server.plugin.ISampleTypeSlaveServerPlugin; import ch.systemsx.cisd.openbis.generic.shared.AbstractServerTestCase; import ch.systemsx.cisd.openbis.plugin.demo.shared.IDemoServer; -import ch.systemsx.cisd.openbis.plugin.generic.server.IPropertiesBatchManager; /** * Test cases for corresponding {@link DemoServer} class. diff --git a/openbis/sourceTest/java/ch/systemsx/cisd/openbis/plugin/generic/server/GenericServerTest.java b/openbis/sourceTest/java/ch/systemsx/cisd/openbis/plugin/generic/server/GenericServerTest.java index c6592548895..f53ebac48fb 100644 --- a/openbis/sourceTest/java/ch/systemsx/cisd/openbis/plugin/generic/server/GenericServerTest.java +++ b/openbis/sourceTest/java/ch/systemsx/cisd/openbis/plugin/generic/server/GenericServerTest.java @@ -251,12 +251,6 @@ public final class GenericServerTest extends AbstractServerTestCase List<NewSamplesWithTypes> samplesWithTypes = new ArrayList<NewSamplesWithTypes>(); final NewSamplesWithTypes newSamplesWithType = new NewSamplesWithTypes(new SampleType(), newSamples); samplesWithTypes.add(newSamplesWithType); - context.checking(new Expectations() - { - { - one(propertiesBatchManager).manageProperties(newSamplesWithType); - } - }); try { @@ -290,7 +284,7 @@ public final class GenericServerTest extends AbstractServerTestCase one(sampleTypeSlaveServerPlugin).registerSamples(SESSION, newSamples, null); - one(propertiesBatchManager).manageProperties(newSamplesWithType); + one(propertiesBatchManager).manageProperties(sampleTypePE, newSamplesWithType); } }); createServer().registerOrUpdateSamples(SESSION_TOKEN, samplesWithTypes); @@ -319,7 +313,7 @@ public final class GenericServerTest extends AbstractServerTestCase one(sampleTypeSlaveServerPlugin).registerSamples(SESSION, newSamples, null); - one(propertiesBatchManager).manageProperties(newSamplesWithType); + one(propertiesBatchManager).manageProperties(sampleTypePE, newSamplesWithType); } }); createServer().registerSamples(SESSION_TOKEN, samplesWithTypes); @@ -850,13 +844,8 @@ public final class GenericServerTest extends AbstractServerTestCase prepareGetSession(); final NewExperimentsWithType experiments = new NewExperimentsWithType(EXPERIMENT_TYPE, createNewExperiments()); - context.checking(new Expectations() - { - { - one(propertiesBatchManager).manageProperties(experiments); - } - }); createServer().registerExperiments(SESSION_TOKEN, experiments); + context.assertIsSatisfied(); } @Test @@ -872,7 +861,7 @@ public final class GenericServerTest extends AbstractServerTestCase context.checking(new Expectations() { { - one(propertiesBatchManager).manageProperties(experiments); + one(propertiesBatchManager).manageProperties(experimentTypePE, experiments); one(daoFactory).getEntityTypeDAO(EntityKind.EXPERIMENT); will(returnValue(entityTypeDAO)); one(entityTypeDAO).tryToFindEntityTypeByCode(EXPERIMENT_TYPE); diff --git a/rtd_phosphonetx/source/java/ch/systemsx/cisd/openbis/plugin/phosphonetx/server/PhosphoNetXServer.java b/rtd_phosphonetx/source/java/ch/systemsx/cisd/openbis/plugin/phosphonetx/server/PhosphoNetXServer.java index ebfcb25bec6..0f66400367b 100644 --- a/rtd_phosphonetx/source/java/ch/systemsx/cisd/openbis/plugin/phosphonetx/server/PhosphoNetXServer.java +++ b/rtd_phosphonetx/source/java/ch/systemsx/cisd/openbis/plugin/phosphonetx/server/PhosphoNetXServer.java @@ -29,6 +29,7 @@ import ch.systemsx.cisd.authentication.ISessionManager; import ch.systemsx.cisd.common.exceptions.UserFailureException; import ch.systemsx.cisd.common.spring.IInvocationLoggerContext; import ch.systemsx.cisd.openbis.generic.server.AbstractServer; +import ch.systemsx.cisd.openbis.generic.server.business.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.generic.server.dataaccess.IDAOFactory; import ch.systemsx.cisd.openbis.generic.server.dataaccess.IVocabularyDAO; import ch.systemsx.cisd.openbis.generic.server.plugin.IDataSetTypeSlaveServerPlugin; @@ -39,7 +40,6 @@ import ch.systemsx.cisd.openbis.generic.shared.dto.ExperimentPE; import ch.systemsx.cisd.openbis.generic.shared.dto.Session; import ch.systemsx.cisd.openbis.generic.shared.dto.VocabularyPE; import ch.systemsx.cisd.openbis.generic.shared.translator.VocabularyTranslator; -import ch.systemsx.cisd.openbis.plugin.generic.server.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.plugin.phosphonetx.server.business.AccessionNumberBuilder; import ch.systemsx.cisd.openbis.plugin.phosphonetx.server.business.IAbundanceColumnDefinitionTable; import ch.systemsx.cisd.openbis.plugin.phosphonetx.server.business.IBusinessObjectFactory; diff --git a/rtd_phosphonetx/source/java/ch/systemsx/cisd/openbis/plugin/phosphonetx/server/ProteomicsDataServiceInternal.java b/rtd_phosphonetx/source/java/ch/systemsx/cisd/openbis/plugin/phosphonetx/server/ProteomicsDataServiceInternal.java index 5673cf414a7..8ff7a36249b 100644 --- a/rtd_phosphonetx/source/java/ch/systemsx/cisd/openbis/plugin/phosphonetx/server/ProteomicsDataServiceInternal.java +++ b/rtd_phosphonetx/source/java/ch/systemsx/cisd/openbis/plugin/phosphonetx/server/ProteomicsDataServiceInternal.java @@ -30,6 +30,7 @@ import ch.systemsx.cisd.common.exceptions.EnvironmentFailureException; import ch.systemsx.cisd.common.exceptions.UserFailureException; import ch.systemsx.cisd.common.spring.IInvocationLoggerContext; import ch.systemsx.cisd.openbis.generic.server.AbstractServer; +import ch.systemsx.cisd.openbis.generic.server.business.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.generic.server.business.bo.ICommonBusinessObjectFactory; import ch.systemsx.cisd.openbis.generic.server.business.bo.IExternalDataTable; import ch.systemsx.cisd.openbis.generic.server.dataaccess.IDAOFactory; @@ -52,7 +53,6 @@ import ch.systemsx.cisd.openbis.generic.shared.dto.PersonPE; import ch.systemsx.cisd.openbis.generic.shared.dto.Session; import ch.systemsx.cisd.openbis.generic.shared.dto.properties.EntityKind; import ch.systemsx.cisd.openbis.generic.shared.translator.ExperimentTranslator; -import ch.systemsx.cisd.openbis.plugin.generic.server.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.plugin.phosphonetx.server.business.ExperimentLoader; import ch.systemsx.cisd.openbis.plugin.phosphonetx.server.business.IBusinessObjectFactory; import ch.systemsx.cisd.openbis.plugin.phosphonetx.server.business.ISampleLoader; diff --git a/rtd_phosphonetx/source/java/ch/systemsx/cisd/openbis/plugin/phosphonetx/server/api/v1/ProteomicsDataService.java b/rtd_phosphonetx/source/java/ch/systemsx/cisd/openbis/plugin/phosphonetx/server/api/v1/ProteomicsDataService.java index 24707207de2..124eb5db493 100644 --- a/rtd_phosphonetx/source/java/ch/systemsx/cisd/openbis/plugin/phosphonetx/server/api/v1/ProteomicsDataService.java +++ b/rtd_phosphonetx/source/java/ch/systemsx/cisd/openbis/plugin/phosphonetx/server/api/v1/ProteomicsDataService.java @@ -34,6 +34,7 @@ import ch.systemsx.cisd.authentication.ISessionManager; import ch.systemsx.cisd.common.exceptions.UserFailureException; import ch.systemsx.cisd.common.spring.IInvocationLoggerContext; import ch.systemsx.cisd.openbis.generic.server.AbstractServer; +import ch.systemsx.cisd.openbis.generic.server.business.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.generic.server.dataaccess.IDAOFactory; import ch.systemsx.cisd.openbis.generic.shared.basic.dto.DataStoreServiceKind; import ch.systemsx.cisd.openbis.generic.shared.basic.dto.DataTypeCode; @@ -48,7 +49,6 @@ import ch.systemsx.cisd.openbis.generic.shared.dto.DataStoreServicePE; import ch.systemsx.cisd.openbis.generic.shared.dto.Session; import ch.systemsx.cisd.openbis.generic.shared.dto.SessionContextDTO; import ch.systemsx.cisd.openbis.generic.shared.util.DataTypeUtils; -import ch.systemsx.cisd.openbis.plugin.generic.server.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.plugin.phosphonetx.shared.IProteomicsDataServiceInternal; import ch.systemsx.cisd.openbis.plugin.phosphonetx.shared.api.v1.IProteomicsDataService; import ch.systemsx.cisd.openbis.plugin.phosphonetx.shared.api.v1.dto.DataSet; diff --git a/screening/source/java/ch/systemsx/cisd/openbis/plugin/screening/server/ScreeningServer.java b/screening/source/java/ch/systemsx/cisd/openbis/plugin/screening/server/ScreeningServer.java index 94d68c2e9e2..d2ab0a736d5 100644 --- a/screening/source/java/ch/systemsx/cisd/openbis/plugin/screening/server/ScreeningServer.java +++ b/screening/source/java/ch/systemsx/cisd/openbis/plugin/screening/server/ScreeningServer.java @@ -39,6 +39,7 @@ import ch.systemsx.cisd.common.mail.MailClient; import ch.systemsx.cisd.common.mail.MailClientParameters; import ch.systemsx.cisd.common.spring.IInvocationLoggerContext; import ch.systemsx.cisd.openbis.generic.server.AbstractServer; +import ch.systemsx.cisd.openbis.generic.server.business.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.generic.server.business.bo.ISampleBO; import ch.systemsx.cisd.openbis.generic.server.business.bo.common.DatabaseContextUtils; import ch.systemsx.cisd.openbis.generic.server.dataaccess.IDAOFactory; @@ -62,7 +63,6 @@ import ch.systemsx.cisd.openbis.generic.shared.dto.SessionContextDTO; import ch.systemsx.cisd.openbis.generic.shared.dto.VocabularyPE; import ch.systemsx.cisd.openbis.generic.shared.translator.SampleTranslator; import ch.systemsx.cisd.openbis.generic.shared.translator.VocabularyTranslator; -import ch.systemsx.cisd.openbis.plugin.generic.server.IPropertiesBatchManager; import ch.systemsx.cisd.openbis.plugin.generic.shared.IGenericServer; import ch.systemsx.cisd.openbis.plugin.screening.server.dataaccess.IScreeningQuery; import ch.systemsx.cisd.openbis.plugin.screening.server.logic.PlateContentLoader; -- GitLab