diff --git a/datastore_server/build/build.xml b/datastore_server/build/build.xml index 3cfcb13002bc77612d96e6e71b8a3cad7594edb2..4de1d69a7b08be27f47a22fb5d58d3b1f73b5811 100644 --- a/datastore_server/build/build.xml +++ b/datastore_server/build/build.xml @@ -38,6 +38,9 @@ <include name="**/*.class" /> <include name="${build.info.filename}" /> </fileset> + <fileset dir="${sources}"> + <include name="**/*.xml" /> + </fileset> <fileset dir="${nativeroot}"> <include name="**/unix.so"/> </fileset> diff --git a/datastore_server/resource/dependency-structure.ddf b/datastore_server/resource/dependency-structure.ddf index f05d29b35835b6677fd0e3a906b402563029606d..3062517985b18847c94ad5cb162839306ab54653 100644 --- a/datastore_server/resource/dependency-structure.ddf +++ b/datastore_server/resource/dependency-structure.ddf @@ -4,15 +4,31 @@ #show allResults {root} = ch.systemsx.cisd +{openbis} = ${root}.openbis +{dss} = ${openbis}.dss {etlserver} = ${root}.etlserver ###################################################################### # Check dependencies to openbis -{openbis} = ${root}.openbis [etlserver] = ${etlserver}.* -[private_openbis] = ${openbis}.* excluding ${openbis}.generic.shared.dto.* ${openbis}.generic.shared.IETLLIMSService +[dss] = ${dss}.* +[private_openbis] = ${openbis}.* excluding [dss] ${openbis}.generic.shared.* + +check sets [dss] [etlserver] + +check [dss] [etlserver] independentOf [private_openbis] + +###################################################################### +# Check dependencies of etlserver to dss + +[dss.shared] = ${dss}.generic.shared.* +[private_dss] = ${dss}.* excluding [dss.shared] ${dss}.generic.DataStoreServer + +check sets [dss.shared] [private_dss] + +layer l1 = [dss.shared] +layer l2 = [etlserver] [private_dss] -check sets [etlserver] +check layeringOf l1 l2 -check [etlserver] independentOf [private_openbis] diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/BDSStorageProcessor.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/BDSStorageProcessor.java index 031f801a49098e7df404c33863d99afb3637163e..bc53c0c20923ccd96708894599d699e109477230 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/BDSStorageProcessor.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/BDSStorageProcessor.java @@ -70,6 +70,7 @@ import ch.systemsx.cisd.common.logging.LogFactory; import ch.systemsx.cisd.common.mail.IMailClient; import ch.systemsx.cisd.common.utilities.ClassUtils; import ch.systemsx.cisd.etlserver.HCSImageCheckList.FullLocation; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; import ch.systemsx.cisd.openbis.generic.shared.dto.DataSetType; import ch.systemsx.cisd.openbis.generic.shared.dto.ExperimentPE; import ch.systemsx.cisd.openbis.generic.shared.dto.PersonPE; diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/DataStrategyStore.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/DataStrategyStore.java index 378e1a76604c16218a330f8b56fdb476f7213922..72e90f178e4b23d4c19c7ef70bd9678713e6077e 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/DataStrategyStore.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/DataStrategyStore.java @@ -28,6 +28,7 @@ import ch.systemsx.cisd.common.logging.LogCategory; import ch.systemsx.cisd.common.logging.LogFactory; import ch.systemsx.cisd.common.mail.IMailClient; import ch.systemsx.cisd.openbis.dss.generic.shared.IEncapsulatedOpenBISService; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; import ch.systemsx.cisd.openbis.generic.shared.dto.ExperimentPE; import ch.systemsx.cisd.openbis.generic.shared.dto.GroupPE; import ch.systemsx.cisd.openbis.generic.shared.dto.PersonPE; diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/DefaultDataSetInfoExtractor.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/DefaultDataSetInfoExtractor.java index fea627bdb96230e99a3f15b4f165766c8b77d753..41aec42f962eb1e984a95ea42f15adbdb7fd5218 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/DefaultDataSetInfoExtractor.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/DefaultDataSetInfoExtractor.java @@ -26,6 +26,7 @@ import ch.rinn.restrictions.Private; import ch.systemsx.cisd.common.exceptions.EnvironmentFailureException; import ch.systemsx.cisd.common.exceptions.UserFailureException; import ch.systemsx.cisd.common.utilities.PropertyUtils; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; /** * Default implementation which assumes that the information can be extracted from the file name. diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/DefaultStorageProcessor.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/DefaultStorageProcessor.java index 356a50764a1325aa3224bac780b2cb4d3e934cf6..0e57861d32629d922989890c135b5b37b58b679f 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/DefaultStorageProcessor.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/DefaultStorageProcessor.java @@ -21,6 +21,7 @@ import java.util.Properties; import ch.systemsx.cisd.common.exceptions.EnvironmentFailureException; import ch.systemsx.cisd.common.mail.IMailClient; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; import ch.systemsx.cisd.openbis.generic.shared.dto.ExperimentPE; import ch.systemsx.cisd.openbis.generic.shared.dto.StorageFormat; diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/IDataSetInfoExtractor.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/IDataSetInfoExtractor.java index bbabefb64ba74aebf75550b10d985021ff9dd0c6..0c4a2980e2425518a69f2d26cccd0ca8f5100c8b 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/IDataSetInfoExtractor.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/IDataSetInfoExtractor.java @@ -20,6 +20,7 @@ import java.io.File; import ch.systemsx.cisd.common.exceptions.EnvironmentFailureException; import ch.systemsx.cisd.common.exceptions.UserFailureException; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; /** * A role to extract {@link DataSetInformation} from an incoming data set. Implementations of this diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/IDataStoreStrategy.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/IDataStoreStrategy.java index 1ecea806c76109a02b96ec7efb960ccc59bed18e..485e447864e6fc5203d48f11698993597dcf080b 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/IDataStoreStrategy.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/IDataStoreStrategy.java @@ -18,6 +18,7 @@ package ch.systemsx.cisd.etlserver; import java.io.File; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; import ch.systemsx.cisd.openbis.generic.shared.dto.DataSetType; /** diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/IDataStrategyStore.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/IDataStrategyStore.java index c88817c6ecb1fcda056d2983039b18edb4f91454..9abb175b4dadf39698337a54c885b8052cbf10cc 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/IDataStrategyStore.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/IDataStrategyStore.java @@ -18,6 +18,8 @@ package ch.systemsx.cisd.etlserver; import java.io.File; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; + /** * The main purpose of this interface is to return a <code>IDataStoreStrategy</code> for a given * <code>DataSetInformation</code>. diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/IHCSImageFileExtractor.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/IHCSImageFileExtractor.java index c412b147adda93ec44c6bd695010764f34794f8e..38655ca0d068f403040239c8330ff096af991a50 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/IHCSImageFileExtractor.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/IHCSImageFileExtractor.java @@ -19,6 +19,7 @@ package ch.systemsx.cisd.etlserver; import java.util.Properties; import ch.systemsx.cisd.bds.storage.IDirectory; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; /** * This role is supposed to be implemented by classes that can extract HCS image files from an diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/IProcessor.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/IProcessor.java index 662d1a5ca491cc1148750af23f7aa0bc8c058584..20c837f8db30791bb39b43e2418e1e514ff472be 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/IProcessor.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/IProcessor.java @@ -18,6 +18,7 @@ package ch.systemsx.cisd.etlserver; import java.io.File; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; import ch.systemsx.cisd.openbis.generic.shared.dto.ProcessingInstructionDTO; import ch.systemsx.cisd.openbis.generic.shared.dto.StorageFormat; diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/IStorageProcessor.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/IStorageProcessor.java index 8d8dc3c4292dd9922f22ab621247746ba99466ba..74771af803ee006b2d3eb0268183af19fbe57cfa 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/IStorageProcessor.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/IStorageProcessor.java @@ -20,6 +20,7 @@ import java.io.File; import java.util.Properties; import ch.systemsx.cisd.common.mail.IMailClient; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; import ch.systemsx.cisd.openbis.generic.shared.dto.ExperimentPE; import ch.systemsx.cisd.openbis.generic.shared.dto.StorageFormat; diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/IdentifiedDataStrategy.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/IdentifiedDataStrategy.java index 98dc811072e94135b1799941f59fb45658a5dcf8..6aa128ffd5cbdb008c8ce878ca8c286ee64b9a8a 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/IdentifiedDataStrategy.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/IdentifiedDataStrategy.java @@ -19,6 +19,7 @@ package ch.systemsx.cisd.etlserver; import java.io.File; import ch.systemsx.cisd.common.exceptions.EnvironmentFailureException; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; import ch.systemsx.cisd.openbis.generic.shared.dto.DataSetType; import ch.systemsx.cisd.openbis.generic.shared.dto.identifier.ExperimentIdentifier; import ch.systemsx.cisd.openbis.generic.shared.dto.identifier.SampleIdentifier; diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/NamedDataStrategy.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/NamedDataStrategy.java index 2fb39810001a638d4bc60a5c0f088f57fdcd10b4..a84902895d923c67c27509f48d683f7ab333166a 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/NamedDataStrategy.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/NamedDataStrategy.java @@ -20,6 +20,7 @@ import java.io.File; import java.util.regex.Pattern; import ch.systemsx.cisd.common.filesystem.FileUtilities; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; import ch.systemsx.cisd.openbis.generic.shared.dto.DataSetType; /** diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/StandardProcessor.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/StandardProcessor.java index 20e5411820545ed320dc8593cf02a350026c8676..9a9c3942381c5660b352eb08d35f5decd8c6429c 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/StandardProcessor.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/StandardProcessor.java @@ -29,6 +29,7 @@ import ch.systemsx.cisd.common.exceptions.StopException; import ch.systemsx.cisd.common.filesystem.PathPrefixPrepender; import ch.systemsx.cisd.common.logging.LogCategory; import ch.systemsx.cisd.common.logging.LogFactory; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; import ch.systemsx.cisd.openbis.generic.shared.dto.ProcessingInstructionDTO; import ch.systemsx.cisd.openbis.generic.shared.dto.StorageFormat; diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/TransferredDataSetHandler.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/TransferredDataSetHandler.java index fabecc77da3f824e5f9c793dc2d05e047038e703..15f623a61826f982eac9686157cac39ab7e94f23 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/TransferredDataSetHandler.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/TransferredDataSetHandler.java @@ -54,6 +54,7 @@ import ch.systemsx.cisd.common.utilities.BeanUtils; import ch.systemsx.cisd.common.utilities.ISelfTestable; import ch.systemsx.cisd.common.utilities.OSUtilities; import ch.systemsx.cisd.openbis.dss.generic.shared.IEncapsulatedOpenBISService; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; import ch.systemsx.cisd.openbis.generic.shared.dto.DataSetType; import ch.systemsx.cisd.openbis.generic.shared.dto.DatabaseInstancePE; import ch.systemsx.cisd.openbis.generic.shared.dto.ExperimentPE; diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/imsb/HCSImageFileExtractor.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/imsb/HCSImageFileExtractor.java index 6112d16c551c923c3aa080767c2877fa91dea037..397dae971bc6db6b8939cccfa55a87e1147a84cd 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/imsb/HCSImageFileExtractor.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/imsb/HCSImageFileExtractor.java @@ -41,10 +41,10 @@ import ch.systemsx.cisd.common.exceptions.StopException; import ch.systemsx.cisd.common.logging.LogCategory; import ch.systemsx.cisd.common.logging.LogFactory; import ch.systemsx.cisd.etlserver.ChannelSetHelper; -import ch.systemsx.cisd.etlserver.DataSetInformation; import ch.systemsx.cisd.etlserver.HCSImageFileExtractionResult; import ch.systemsx.cisd.etlserver.IHCSImageFileAccepter; import ch.systemsx.cisd.etlserver.IHCSImageFileExtractor; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; /** * A <code>IHCSImageFileExtractor</code> implementation suitable for <i>3V</i>. diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/threev/AbstractDataSetInfoExtractorFor3V.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/threev/AbstractDataSetInfoExtractorFor3V.java index 2b04add8cbd239be38a0976abceeaad4d28d214a..8bedbf972d0e2a56d6dcf501bf8e1b65d6b28565 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/threev/AbstractDataSetInfoExtractorFor3V.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/threev/AbstractDataSetInfoExtractorFor3V.java @@ -27,9 +27,9 @@ import ch.systemsx.cisd.common.exceptions.EnvironmentFailureException; import ch.systemsx.cisd.common.exceptions.UserFailureException; import ch.systemsx.cisd.common.utilities.PropertyUtils; import ch.systemsx.cisd.etlserver.AbstractDataSetInfoExtractor; -import ch.systemsx.cisd.etlserver.DataSetInformation; import ch.systemsx.cisd.etlserver.DataSetNameEntitiesProvider; import ch.systemsx.cisd.etlserver.DefaultDataSetInfoExtractor; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; /** * @author Franz-Josef Elmer diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/threev/DataSetInfoExtractorForDataAcquisition.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/threev/DataSetInfoExtractorForDataAcquisition.java index 283b58a2195f48da37af668c695e355edbb66ccd..263aa5033db5643037e4fc991e1c830ff94ef88a 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/threev/DataSetInfoExtractorForDataAcquisition.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/threev/DataSetInfoExtractorForDataAcquisition.java @@ -19,8 +19,8 @@ package ch.systemsx.cisd.etlserver.threev; import java.util.Properties; import ch.rinn.restrictions.Private; -import ch.systemsx.cisd.etlserver.DataSetInformation; import ch.systemsx.cisd.etlserver.DefaultDataSetInfoExtractor; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; /** * Implementation which assumes that the information can be extracted from the file name. Following diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/threev/DataSetInfoExtractorForImageAnalysis.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/threev/DataSetInfoExtractorForImageAnalysis.java index 211c053e7248b3cfa4148be3bcabae5292001f57..a3e5d52eeee71c8f38f552cb1ea5ce7cd6b92e7c 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/threev/DataSetInfoExtractorForImageAnalysis.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/threev/DataSetInfoExtractorForImageAnalysis.java @@ -19,8 +19,8 @@ package ch.systemsx.cisd.etlserver.threev; import java.util.Properties; import ch.rinn.restrictions.Private; -import ch.systemsx.cisd.etlserver.DataSetInformation; import ch.systemsx.cisd.etlserver.DefaultDataSetInfoExtractor; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; /** * Implementation which assumes that the information can be extracted from the file name. Following diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/threev/HCSImageFileExtractor.java b/datastore_server/source/java/ch/systemsx/cisd/etlserver/threev/HCSImageFileExtractor.java index c250dfaebfe2b435bd43974aefbf2b97a58c87a6..f918fa47b20c47727e2296955b1baae86014a312 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/threev/HCSImageFileExtractor.java +++ b/datastore_server/source/java/ch/systemsx/cisd/etlserver/threev/HCSImageFileExtractor.java @@ -35,10 +35,10 @@ import ch.systemsx.cisd.common.exceptions.StopException; import ch.systemsx.cisd.common.logging.LogCategory; import ch.systemsx.cisd.common.logging.LogFactory; import ch.systemsx.cisd.etlserver.ChannelSetHelper; -import ch.systemsx.cisd.etlserver.DataSetInformation; import ch.systemsx.cisd.etlserver.HCSImageFileExtractionResult; import ch.systemsx.cisd.etlserver.IHCSImageFileAccepter; import ch.systemsx.cisd.etlserver.IHCSImageFileExtractor; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; /** * A <code>IHCSImageFileExtractor</code> implementation suitable for <i>3V</i>. diff --git a/datastore_server/source/java/ch/systemsx/cisd/openbis/dss/generic/server/EncapsulatedOpenBISService.java b/datastore_server/source/java/ch/systemsx/cisd/openbis/dss/generic/server/EncapsulatedOpenBISService.java index 212be42508b1cb97b2b80c4d3c0ccfb9c7b211b4..571e0ab210632c45d41f2f6cbd197c76cc5872ee 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/openbis/dss/generic/server/EncapsulatedOpenBISService.java +++ b/datastore_server/source/java/ch/systemsx/cisd/openbis/dss/generic/server/EncapsulatedOpenBISService.java @@ -25,8 +25,8 @@ import ch.systemsx.cisd.common.exceptions.UserFailureException; import ch.systemsx.cisd.common.logging.LogCategory; import ch.systemsx.cisd.common.logging.LogFactory; import ch.systemsx.cisd.common.spring.HttpInvokerUtils; -import ch.systemsx.cisd.etlserver.DataSetInformation; import ch.systemsx.cisd.openbis.dss.generic.shared.IEncapsulatedOpenBISService; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; import ch.systemsx.cisd.openbis.generic.shared.IETLLIMSService; import ch.systemsx.cisd.openbis.generic.shared.dto.DatabaseInstancePE; import ch.systemsx.cisd.openbis.generic.shared.dto.ExperimentPE; diff --git a/datastore_server/source/java/ch/systemsx/cisd/openbis/dss/generic/shared/IEncapsulatedOpenBISService.java b/datastore_server/source/java/ch/systemsx/cisd/openbis/dss/generic/shared/IEncapsulatedOpenBISService.java index c2d17a03dc0478983993288902e627e344264acf..1b4a499e3d29d5105b8a3e064f9de41de89f8a85 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/openbis/dss/generic/shared/IEncapsulatedOpenBISService.java +++ b/datastore_server/source/java/ch/systemsx/cisd/openbis/dss/generic/shared/IEncapsulatedOpenBISService.java @@ -17,7 +17,7 @@ package ch.systemsx.cisd.openbis.dss.generic.shared; import ch.systemsx.cisd.common.exceptions.UserFailureException; -import ch.systemsx.cisd.etlserver.DataSetInformation; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; import ch.systemsx.cisd.openbis.generic.shared.IETLLIMSService; import ch.systemsx.cisd.openbis.generic.shared.dto.DatabaseInstancePE; import ch.systemsx.cisd.openbis.generic.shared.dto.ExperimentPE; diff --git a/datastore_server/source/java/ch/systemsx/cisd/etlserver/DataSetInformation.java b/datastore_server/source/java/ch/systemsx/cisd/openbis/dss/generic/shared/dto/DataSetInformation.java similarity index 97% rename from datastore_server/source/java/ch/systemsx/cisd/etlserver/DataSetInformation.java rename to datastore_server/source/java/ch/systemsx/cisd/openbis/dss/generic/shared/dto/DataSetInformation.java index 1713d9768c9ab72215dadcb33a9e733ebc3b5a32..0bb54f9483dd44911b050664c30b40413dde2522 100644 --- a/datastore_server/source/java/ch/systemsx/cisd/etlserver/DataSetInformation.java +++ b/datastore_server/source/java/ch/systemsx/cisd/openbis/dss/generic/shared/dto/DataSetInformation.java @@ -14,7 +14,7 @@ * limitations under the License. */ -package ch.systemsx.cisd.etlserver; +package ch.systemsx.cisd.openbis.dss.generic.shared.dto; import java.io.Serializable; import java.util.Date; @@ -59,8 +59,7 @@ public final class DataSetInformation implements Serializable private String instanceCode; /** - * The group code (set by the {@link IDataSetInfoExtractor} or as specified in the - * <code>service.properties</code> file). + * The group code. */ private String groupCode; diff --git a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/BDSStorageProcessorTest.java b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/BDSStorageProcessorTest.java index 93fed0375228e5295e79a705ea7637efa25ced9a..c576e14fb499fa44909e9ef85646ef725c3a8206 100644 --- a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/BDSStorageProcessorTest.java +++ b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/BDSStorageProcessorTest.java @@ -63,6 +63,7 @@ import ch.systemsx.cisd.common.filesystem.QueueingPathRemoverService; import ch.systemsx.cisd.common.logging.BufferedAppender; import ch.systemsx.cisd.common.mail.IMailClient; import ch.systemsx.cisd.common.types.BooleanOrUnknown; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; import ch.systemsx.cisd.openbis.generic.shared.dto.DataTypePE; import ch.systemsx.cisd.openbis.generic.shared.dto.ExperimentPE; import ch.systemsx.cisd.openbis.generic.shared.dto.GroupPE; diff --git a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/DataStrategyStoreTest.java b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/DataStrategyStoreTest.java index 997f0b3a238c1a1e679577ab188de1e8e7194f19..4ed9c5eb240baa309b249ee4530e47105abd4224 100644 --- a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/DataStrategyStoreTest.java +++ b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/DataStrategyStoreTest.java @@ -33,6 +33,7 @@ import ch.systemsx.cisd.common.filesystem.AbstractFileSystemTestCase; import ch.systemsx.cisd.common.logging.BufferedAppender; import ch.systemsx.cisd.common.mail.IMailClient; import ch.systemsx.cisd.openbis.dss.generic.shared.IEncapsulatedOpenBISService; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; import ch.systemsx.cisd.openbis.generic.shared.dto.ExperimentPE; import ch.systemsx.cisd.openbis.generic.shared.dto.GroupPE; import ch.systemsx.cisd.openbis.generic.shared.dto.InvalidationPE; diff --git a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/DefaultDataSetInfoExtractorTest.java b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/DefaultDataSetInfoExtractorTest.java index 985e19f131aef4a9c2af726c5facce5e6734af5d..4a2d40113b1329f468b1db278879bf131be85694 100644 --- a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/DefaultDataSetInfoExtractorTest.java +++ b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/DefaultDataSetInfoExtractorTest.java @@ -27,6 +27,7 @@ import java.util.Properties; import org.testng.annotations.Test; import ch.systemsx.cisd.common.exceptions.UserFailureException; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; /** * Test cases for the {@link DefaultDataSetInfoExtractor}. diff --git a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/EncapsulatedLimsServiceTest.java b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/EncapsulatedLimsServiceTest.java index 4503fa002d5f69ac8422f11b8d54f24787b055fb..1a8ee430be51cc66e1e61637916dda07311409ee 100644 --- a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/EncapsulatedLimsServiceTest.java +++ b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/EncapsulatedLimsServiceTest.java @@ -25,6 +25,7 @@ import org.testng.annotations.Test; import ch.systemsx.cisd.common.exceptions.InvalidSessionException; import ch.systemsx.cisd.openbis.dss.generic.server.EncapsulatedOpenBISService; import ch.systemsx.cisd.openbis.dss.generic.shared.IEncapsulatedOpenBISService; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; import ch.systemsx.cisd.openbis.generic.shared.IETLLIMSService; import ch.systemsx.cisd.openbis.generic.shared.dto.ExternalData; import ch.systemsx.cisd.openbis.generic.shared.dto.identifier.SampleIdentifier; diff --git a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/IdentifiedDataStrategyTest.java b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/IdentifiedDataStrategyTest.java index 2e6aa25956a8648444b0968795b09a025f051f4e..a8e37b9a00305b062f9740207bd91774c59febb0 100644 --- a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/IdentifiedDataStrategyTest.java +++ b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/IdentifiedDataStrategyTest.java @@ -30,6 +30,7 @@ import org.testng.annotations.Test; import ch.systemsx.cisd.common.exceptions.EnvironmentFailureException; import ch.systemsx.cisd.common.filesystem.AbstractFileSystemTestCase; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; import ch.systemsx.cisd.openbis.generic.shared.dto.DataSetType; import ch.systemsx.cisd.openbis.generic.shared.dto.identifier.ExperimentIdentifier; import ch.systemsx.cisd.openbis.generic.shared.dto.types.DataSetTypeCode; diff --git a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/StandardProcessorTest.java b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/StandardProcessorTest.java index a1ff51e182efe634b61553a256ac9f1f86a3a7d9..70df5170d03229ded3366be88085cb40eeebf047 100644 --- a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/StandardProcessorTest.java +++ b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/StandardProcessorTest.java @@ -34,6 +34,7 @@ import org.testng.annotations.Test; import ch.systemsx.cisd.common.exceptions.ConfigurationFailureException; import ch.systemsx.cisd.common.filesystem.AbstractFileSystemTestCase; import ch.systemsx.cisd.common.filesystem.PathPrefixPrepender; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; import ch.systemsx.cisd.openbis.generic.shared.dto.ProcessingInstructionDTO; import ch.systemsx.cisd.openbis.generic.shared.dto.StorageFormat; diff --git a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/TransferredDataSetHandlerTest.java b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/TransferredDataSetHandlerTest.java index 514d84255d56b720007caab52d1059455a3fe8ce..53342e341f8da058e98145a0c9a513120429ffcc 100644 --- a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/TransferredDataSetHandlerTest.java +++ b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/TransferredDataSetHandlerTest.java @@ -57,6 +57,7 @@ import ch.systemsx.cisd.common.test.LogMonitoringAppender; import ch.systemsx.cisd.common.utilities.OSUtilities; import ch.systemsx.cisd.openbis.dss.generic.server.EncapsulatedOpenBISService; import ch.systemsx.cisd.openbis.dss.generic.shared.IEncapsulatedOpenBISService; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; import ch.systemsx.cisd.openbis.generic.shared.IETLLIMSService; import ch.systemsx.cisd.openbis.generic.shared.dto.DataSetType; import ch.systemsx.cisd.openbis.generic.shared.dto.DatabaseInstancePE; diff --git a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/imsb/HCSImageFileExtractorTest.java b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/imsb/HCSImageFileExtractorTest.java index 1c017bbdf2ca5a6f6215fffe1be743c26faacd81..d49fa03a760e1f0531a7b1edfa05772cffb0d70d 100644 --- a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/imsb/HCSImageFileExtractorTest.java +++ b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/imsb/HCSImageFileExtractorTest.java @@ -40,8 +40,8 @@ import ch.systemsx.cisd.bds.storage.IFile; import ch.systemsx.cisd.bds.storage.filesystem.NodeFactory; import ch.systemsx.cisd.common.filesystem.AbstractFileSystemTestCase; import ch.systemsx.cisd.common.logging.BufferedAppender; -import ch.systemsx.cisd.etlserver.DataSetInformation; import ch.systemsx.cisd.etlserver.IHCSImageFileAccepter; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; /** * Test cases for the {@link HCSImageFileExtractor}. diff --git a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/threev/DataSetInfoExtractorForDataAcquisitionTest.java b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/threev/DataSetInfoExtractorForDataAcquisitionTest.java index bea0c12945e5ba15e9d4e3ff0f9d00fc7747a294..eaf462a0521a550a6249204412f87df753ccc3cd 100644 --- a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/threev/DataSetInfoExtractorForDataAcquisitionTest.java +++ b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/threev/DataSetInfoExtractorForDataAcquisitionTest.java @@ -27,8 +27,8 @@ import org.testng.annotations.Test; import ch.systemsx.cisd.common.exceptions.ConfigurationFailureException; import ch.systemsx.cisd.etlserver.CodeExtractortTestCase; -import ch.systemsx.cisd.etlserver.DataSetInformation; import ch.systemsx.cisd.etlserver.IDataSetInfoExtractor; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; /** * @author Franz-Josef Elmer diff --git a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/threev/DataSetInfoExtractorForImageAnalysisTest.java b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/threev/DataSetInfoExtractorForImageAnalysisTest.java index 46ae5ddb907b037d55327429eb1c5a31d9b1c22a..fa73363021436d2aa3ea9b6a6544b8fa8bbba392 100644 --- a/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/threev/DataSetInfoExtractorForImageAnalysisTest.java +++ b/datastore_server/sourceTest/java/ch/systemsx/cisd/etlserver/threev/DataSetInfoExtractorForImageAnalysisTest.java @@ -26,8 +26,8 @@ import org.testng.annotations.Test; import ch.systemsx.cisd.common.exceptions.ConfigurationFailureException; import ch.systemsx.cisd.etlserver.CodeExtractortTestCase; -import ch.systemsx.cisd.etlserver.DataSetInformation; import ch.systemsx.cisd.etlserver.IDataSetInfoExtractor; +import ch.systemsx.cisd.openbis.dss.generic.shared.dto.DataSetInformation; /** * @author Franz-Josef Elmer