Class DifferentialExpressionAnalysisReplacementTest

java.lang.Object

ubic.gemma.core.util.test.BaseTest5

ubic.gemma.core.util.test.BaseIntegrationTest5

ubic.gemma.core.util.test.BaseSpringContextTest5

ubic.gemma.core.analysis.expression.diff.DifferentialExpressionAnalysisReplacementTest

public class DifferentialExpressionAnalysisReplacementTest
extends BaseSpringContextTest5

Which existing analyses a newly persisted one replaces.

Paul's ruling, 2026-09-13: a non-subset analysis is replaced by a non-subset run that covers every one of its factors, not only by a run on the identical factor set. GSE107259 kept 264375 on genotype beside 432412 on genotype + treatment.

Author:

gembro

Field Summary

Fields inherited from class BaseSpringContextTest5

arrayDesignPersister, externalDatabaseService, log, persisterHelper, taxonService, testHelper

Constructor Summary

Constructors

Constructor	Description
DifferentialExpressionAnalysisReplacementTest()

Method Summary

Modifier and Type	Method	Description
void	setUp()
void	testARunOnFewerFactorsKeepsTheWiderAnalysis()	The rule runs one way: a narrower run leaves a wider analysis in place, since it does not cover it.
void	testARunOnMoreFactorsReplacesTheNarrowerAnalysis()
void	testARunOnTheSameFactorsReplacesTheAnalysis()	The identical factor set is still replaced, as it always was.

Methods inherited from class BaseSpringContextTest5

addTestAnalyses, countRowsInTable, deleteFromTables, getJdbcTemplate, getNewTestPersistentCompleteExpressionExperiment, getTaxon, getTestNonPersistentBioSequence, getTestPersistentArrayDesign, getTestPersistentArrayDesign, getTestPersistentArrayDesign, getTestPersistentBasicExpressionExperiment, getTestPersistentBasicExpressionExperiment, getTestPersistentBibliographicReference, getTestPersistentBioAssay, getTestPersistentBioAssay, getTestPersistentBioMaterial, getTestPersistentBioMaterial, getTestPersistentBioSequence, getTestPersistentBioSequence, getTestPersistentBioSequence2GeneProducts, getTestPersistentBlatResult, getTestPersistentBlatResult, getTestPersistentCompleteExpressionExperiment, getTestPersistentCompleteExpressionExperimentWithSequences, getTestPersistentCompleteExpressionExperimentWithSequences, getTestPersistentContact, getTestPersistentDatabaseEntry, getTestPersistentDatabaseEntry, getTestPersistentDatabaseEntry, getTestPersistentDatabaseEntry, getTestPersistentDatabaseEntry, getTestPersistentExpressionExperiment, getTestPersistentExpressionExperiment, getTestPersistentGene, getTestPersistentGene, getTestPersistentGeneProduct, getTestPersistentQuantitationType, randomName, resetTestCollectionSize, runAsAdmin, runAsAgent, runAsAnonymous, runAsUser, runAsUser, setTestCollectionSize

Methods inherited from class BaseIntegrationTest5

setUpAuthentication, tearDownSecurityContext

Methods inherited from class Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Details

DifferentialExpressionAnalysisReplacementTest

public DifferentialExpressionAnalysisReplacementTest()

Method Details

setUp

@BeforeEach
public void setUp()

testARunOnMoreFactorsReplacesTheNarrowerAnalysis

@Test
public void testARunOnMoreFactorsReplacesTheNarrowerAnalysis()

testARunOnFewerFactorsKeepsTheWiderAnalysis

@Test
public void testARunOnFewerFactorsKeepsTheWiderAnalysis()

The rule runs one way: a narrower run leaves a wider analysis in place, since it does not cover it.

testARunOnTheSameFactorsReplacesTheAnalysis

@Test
public void testARunOnTheSameFactorsReplacesTheAnalysis()

The identical factor set is still replaced, as it always was.