Package ubic.gemma.core.analysis.expression.diff

Class DifferentialExpressionAnalyzerServiceTest

java.lang.Object

org.springframework.test.context.junit4.AbstractJUnit4SpringContextTests

ubic.gemma.core.util.test.BaseIntegrationTest

ubic.gemma.core.util.test.BaseSpringContextTest

ubic.gemma.core.loader.expression.geo.AbstractGeoServiceTest

ubic.gemma.core.analysis.expression.diff.DifferentialExpressionAnalyzerServiceTest

All Implemented Interfaces:

Aware, ApplicationContextAware

public class DifferentialExpressionAnalyzerServiceTest
extends AbstractGeoServiceTest

Author:

keshav, paul

Field Summary

Fields inherited from class ubic.gemma.core.util.test.BaseSpringContextTest

externalDatabaseService, log, persisterHelper, rule, taxonService, testHelper

Fields inherited from class org.springframework.test.context.junit4.AbstractJUnit4SpringContextTests

applicationContext, logger

Constructor Summary

Constructors

Constructor	Description
DifferentialExpressionAnalyzerServiceTest()

Method Summary

Modifier and Type	Method	Description
void	tearDown()
void	testAnalyzeAndDelete()
void	testAnalyzeAndDeleteSpecificAnalysis()	Test for bug 2026, not a subsetted analysis.
void	testAnalyzeAndDeleteSpecificAnalysisWithSubset()	Tests running with a subset factor, then deleting.
void	testAnalyzeWithSubsetWhenOneIsNotUsableAndWithInteractionInTheOther()	Test inspired by bug 2605
void	testContinuousFactor()
void	testWritePValuesHistogram()

Methods inherited from class ubic.gemma.core.loader.expression.geo.AbstractGeoServiceTest

getTestFileBasePath, getTestFileBasePath

Methods inherited from class ubic.gemma.core.util.test.BaseSpringContextTest

addTestAnalyses, countRowsInTable, deleteFromTables, executeSqlScript, 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 ubic.gemma.core.util.test.BaseIntegrationTest

setUpAuthentication, tearDownSecurityContext

Methods inherited from class org.springframework.test.context.junit4.AbstractJUnit4SpringContextTests

setApplicationContext

Methods inherited from class java.lang.Object

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

Constructor Detail

DifferentialExpressionAnalyzerServiceTest

public DifferentialExpressionAnalyzerServiceTest()

Method Detail

tearDown

public void tearDown()

testAnalyzeAndDeleteSpecificAnalysis

public void testAnalyzeAndDeleteSpecificAnalysis()
                                          throws Exception

Test for bug 2026, not a subsetted analysis.

Throws:

Exception

testAnalyzeAndDeleteSpecificAnalysisWithSubset

public void testAnalyzeAndDeleteSpecificAnalysisWithSubset()
                                                    throws Exception

Tests running with a subset factor, then deleting.

Throws:

Exception

testAnalyzeAndDelete

public void testAnalyzeAndDelete()
                          throws Exception

Throws:

Exception

testAnalyzeWithSubsetWhenOneIsNotUsableAndWithInteractionInTheOther

public void testAnalyzeWithSubsetWhenOneIsNotUsableAndWithInteractionInTheOther()
                                                                         throws Exception

Test inspired by bug 2605

Throws:

Exception

testWritePValuesHistogram

public void testWritePValuesHistogram()
                               throws Exception

Throws:

Exception

testContinuousFactor

public void testContinuousFactor()
                          throws Exception

Throws:

Exception