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Add skeleton for querying result sets
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21 changes: 21 additions & 0 deletions
21
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.AnalysisResultSet; | ||
| import ubic.gemma.model.analysis.AnalysisResultSetValueObject; | ||
| import ubic.gemma.persistence.service.BaseVoEnabledService; | ||
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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<O extends AnalysisResultSet, V extends AnalysisResultSetValueObject<O>> extends BaseVoEnabledService<O, V> { | ||
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| /** | ||
| * | ||
| * @param i | ||
| * @return | ||
| */ | ||
| V loadValueObjectsLimit( 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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13 changes: 13 additions & 0 deletions
13
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.persistence.service.BaseVoEnabledDao; | ||
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| /** | ||
| * Generic DAO for manipulating {@link AnalysisResultSet}. | ||
| * | ||
| * @param <O> | ||
| * @param <VO> | ||
| */ | ||
| public interface AnalysisResultSetDao<O extends AnalysisResultSet, VO extends AnalysisResultSetValueObject<O>> extends BaseVoEnabledDao<O, VO> { | ||
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| } |
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45
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; | ||
| import java.util.stream.Collectors; | ||
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| /** | ||
| * Exposes an {@link AnalysisResultSet} to the public API. | ||
| * | ||
| * @param <R> type of analysis result set this is wrapping. | ||
| */ | ||
| public abstract class AnalysisResultSetValueObject<R extends AnalysisResultSet> extends IdentifiableValueObject<R> { | ||
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| private final Collection<AnalysisResultValueObject> analysisResults; | ||
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| public AnalysisResultSetValueObject( AnalysisResultSet<AnalysisResult> analysisResultSet ) { | ||
| super( analysisResultSet.getId() ); | ||
| this.analysisResults = analysisResultSet.getResults() | ||
| .stream().map( AnalysisResultValueObject::new ) | ||
| .collect( Collectors.toList() ); | ||
| } | ||
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| public Collection<AnalysisResultValueObject> getAnalysisResults() { | ||
| return analysisResults; | ||
| } | ||
| } |
28 changes: 28 additions & 0 deletions
28
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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| public class AnalysisResultValueObject<A extends AnalysisResult> extends IdentifiableValueObject<A> { | ||
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| public AnalysisResultValueObject( AnalysisResult analysisResult ) { | ||
| super( analysisResult.getId() ); | ||
| } | ||
| } |
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43 changes: 43 additions & 0 deletions
43
...gemma/model/analysis/expression/diff/DifferentialExpressionAnalysisResultValueObject.java
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| /* | ||
| * The Gemma project | ||
| * | ||
| * Copyright (c) 2010 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.expression.diff; | ||
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| import ubic.gemma.model.IdentifiableValueObject; | ||
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| public class DifferentialExpressionAnalysisResultValueObject extends IdentifiableValueObject<DifferentialExpressionAnalysisResult> { | ||
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| private final Double pValue; | ||
| private final Double correctedPvalue; | ||
| private final Double rank; | ||
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| public DifferentialExpressionAnalysisResultValueObject( DifferentialExpressionAnalysisResult result ) { | ||
| super( result.getId() ); | ||
| this.pValue = result.getPvalue(); | ||
| this.correctedPvalue = result.getCorrectedPvalue(); | ||
| this.rank = result.getRank(); | ||
| } | ||
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| public Double getPvalue() { | ||
| return pValue; | ||
| } | ||
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| public Double getCorrectedPvalue() { | ||
| return correctedPvalue; | ||
| } | ||
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| public Double getRank() { | ||
| return rank; | ||
| } | ||
| } |
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