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Add skeleton for querying result sets
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29 changes: 29 additions & 0 deletions
29
gemma-core/src/main/java/ubic/gemma/core/analysis/service/AnalysisResultSetService.java
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| package ubic.gemma.core.analysis.service; | ||
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| import ubic.gemma.model.analysis.AnalysisResult; | ||
| import ubic.gemma.model.analysis.AnalysisResultSet; | ||
| import ubic.gemma.model.analysis.AnalysisResultSetValueObject; | ||
| import ubic.gemma.model.analysis.expression.diff.ExpressionAnalysisResultSet; | ||
| import ubic.gemma.model.expression.bioAssay.BioAssay; | ||
| import ubic.gemma.persistence.service.BaseVoEnabledService; | ||
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| import java.util.Collection; | ||
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| /** | ||
| * Interface for services providing {@link AnalysisResultSet}. | ||
| * | ||
| * @param <O> the type of result set | ||
| * @param <V> a value object type to expose result sets | ||
| */ | ||
| public interface AnalysisResultSetService<K extends AnalysisResult, O extends AnalysisResultSet<K>, V extends AnalysisResultSetValueObject<K, O>> extends BaseVoEnabledService<O, V> { | ||
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| /** | ||
| * | ||
| * | ||
| * @param datasets | ||
| * @param externalIds | ||
| * @param i | ||
| * @return | ||
| */ | ||
| Collection<O> findByDatasetInAndExternalIdsLimit( Collection<BioAssay> datasets, Collection<String> externalIds, int i ); | ||
| } |
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10 changes: 10 additions & 0 deletions
10
gemma-core/src/main/java/ubic/gemma/model/analysis/AnalysisResult.java
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| package ubic.gemma.model.analysis; | ||
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| import ubic.gemma.model.common.Identifiable; | ||
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| /** | ||
| * Abstract class representing a single result from an {@link Analysis} and a typical part of an {@link AnalysisResultSet}. | ||
| */ | ||
| public abstract class AnalysisResult implements Identifiable { | ||
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| } |
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gemma-core/src/main/java/ubic/gemma/model/analysis/AnalysisResultSetDao.java
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| package ubic.gemma.model.analysis; | ||
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| import ubic.gemma.model.analysis.expression.diff.ExpressionAnalysisResultSet; | ||
| import ubic.gemma.model.expression.bioAssay.BioAssay; | ||
| import ubic.gemma.persistence.service.BaseVoEnabledDao; | ||
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| import java.util.Collection; | ||
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| /** | ||
| * Generic DAO for manipulating {@link AnalysisResultSet}. | ||
| * | ||
| * @param <O> | ||
| * @param <VO> | ||
| */ | ||
| public interface AnalysisResultSetDao<K extends AnalysisResult, O extends AnalysisResultSet<K>, VO extends AnalysisResultSetValueObject<K, O>> extends BaseVoEnabledDao<O, VO> { | ||
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| /** | ||
| * Retrieve result sets associated to a set of {@link BioAssay} and external identifiers. | ||
| * | ||
| * @param bioAssayIds related {@link BioAssay}, or any if null | ||
| * @param externalIds related external identifier associated to the {@link BioAssay}, or any if null | ||
| * @param limit maximum number of results to return | ||
| * @return | ||
| */ | ||
| Collection<ExpressionAnalysisResultSet> findByDatasetInAndExternalIdsLimit( Collection<BioAssay> bioAssayIds, Collection<String> externalIds, int limit ); | ||
| } |
38 changes: 38 additions & 0 deletions
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gemma-core/src/main/java/ubic/gemma/model/analysis/AnalysisResultSetValueObject.java
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| /* | ||
| * The Gemma project | ||
| * | ||
| * Copyright (c) 2006 University of British Columbia | ||
| * | ||
| * Licensed under the Apache License, Version 2.0 (the "License"); | ||
| * you may not use this file except in compliance with the License. | ||
| * You may obtain a copy of the License at | ||
| * | ||
| * http://www.apache.org/licenses/LICENSE-2.0 | ||
| * | ||
| * Unless required by applicable law or agreed to in writing, software | ||
| * distributed under the License is distributed on an "AS IS" BASIS, | ||
| * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. | ||
| * See the License for the specific language governing permissions and | ||
| * limitations under the License. | ||
| * | ||
| */ | ||
| package ubic.gemma.model.analysis; | ||
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| import ubic.gemma.model.IdentifiableValueObject; | ||
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| import java.util.Collection; | ||
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| /** | ||
| * Exposes an {@link AnalysisResultSet} to the public API. | ||
| * | ||
| * @param <K> underlying type of analysis result in the set | ||
| * @param <R> type of analysis result set this is wrapping. | ||
| */ | ||
| public abstract class AnalysisResultSetValueObject<K extends AnalysisResult, R extends AnalysisResultSet<K>> extends IdentifiableValueObject<R> { | ||
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| protected AnalysisResultSetValueObject( R analysisResultSet ) { | ||
| super( analysisResultSet.getId() ); | ||
| } | ||
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| public abstract Collection<AnalysisResultValueObject<K>> getAnalysisResults(); | ||
| } |
33 changes: 33 additions & 0 deletions
33
gemma-core/src/main/java/ubic/gemma/model/analysis/AnalysisResultValueObject.java
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| /* | ||
| * The Gemma project | ||
| * | ||
| * Copyright (c) 2006 University of British Columbia | ||
| * | ||
| * Licensed under the Apache License, Version 2.0 (the "License"); | ||
| * you may not use this file except in compliance with the License. | ||
| * You may obtain a copy of the License at | ||
| * | ||
| * http://www.apache.org/licenses/LICENSE-2.0 | ||
| * | ||
| * Unless required by applicable law or agreed to in writing, software | ||
| * distributed under the License is distributed on an "AS IS" BASIS, | ||
| * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. | ||
| * See the License for the specific language governing permissions and | ||
| * limitations under the License. | ||
| * | ||
| */ | ||
| package ubic.gemma.model.analysis; | ||
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| import ubic.gemma.model.IdentifiableValueObject; | ||
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| /** | ||
| * Wraps an {@link AnalysisResult} to expose it on the public API. | ||
| * | ||
| * @param <A> type of {@link AnalysisResult} being wrapped by this value object | ||
| */ | ||
| public abstract class AnalysisResultValueObject<A extends AnalysisResult> extends IdentifiableValueObject<A> { | ||
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| public AnalysisResultValueObject( AnalysisResult analysisResult ) { | ||
| super( analysisResult.getId() ); | ||
| } | ||
| } |
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