Package ubic.gemma.persistence.service.expression.experiment

Class ExpressionExperimentServiceIntegrationTest

java.lang.Object

org.springframework.test.context.junit4.AbstractJUnit4SpringContextTests

ubic.gemma.core.util.test.BaseIntegrationTest

ubic.gemma.core.util.test.BaseSpringContextTest

ubic.gemma.persistence.service.expression.experiment.ExpressionExperimentServiceIntegrationTest

All Implemented Interfaces:

Aware, ApplicationContextAware

public class ExpressionExperimentServiceIntegrationTest
extends BaseSpringContextTest

Author:

kkeshav, pavlidis

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
ExpressionExperimentServiceIntegrationTest()

Method Summary

Modifier and Type	Method	Description
void	setUp()
void	tearDown()
void	testCacheInvalidationWhenACharacteristicIsDeleted()
void	testFilterByAllCharacteristics()
void	testFilterByGeeqScore()
void	testFilterBySuitabilityScoreAsAdmin()
void	testFilterBySuitabilityScoreAsNonAdmin()
void	testFindByAccession()
void	testFindByFactor()
void	testFindByFactorValue()
void	testFindByFactorValueId()
void	testGetBioMaterialCount()
void	testGetByTaxon()
void	testGetDesignElementDataVectorCount()
void	testGetDesignElementDataVectorsByQt()
void	testGetFilter()	EE service has a few extensions for supporting various filtering strategies in the frontend, so we need to test them here.
void	testGetFilterableProperties()
void	testGetFilterablePropertyType()
void	testGetPerTaxonCount()
void	testGetPreferredQuantitationType()
void	testGetQuantitationTypeCount()
void	testGetQuantitationTypes()
void	testGetRawExpressionDataVectors()
void	testLoadAllValueObjects()
void	testLoadBlacklistedValueObjects()
void	testLoadValueObjectsByBioAssay()
void	testLoadValueObjectsByCharacteristic()
void	testLoadValueObjectsByFactorValueCharacteristic()
void	testLoadValueObjectsByIds()
void	testLoadValueObjectsBySampleUsedCharacteristic()
void	testRemoveExperimentInSet()
void	testRemoveExperimentInSingletonSet()
void	testSaveWithTransientEntity()
void	testUpdateWithTransientEntity()

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

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 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

ExpressionExperimentServiceIntegrationTest

public ExpressionExperimentServiceIntegrationTest()

Method Detail

setUp

public void setUp()

tearDown

public void tearDown()

testFindByAccession

public final void testFindByAccession()

testFindByFactor

public void testFindByFactor()

testFindByFactorValue

public void testFindByFactorValue()

testFindByFactorValueId

public void testFindByFactorValueId()

testLoadAllValueObjects

public void testLoadAllValueObjects()

testGetByTaxon

public void testGetByTaxon()

testGetDesignElementDataVectorsByQt

public final void testGetDesignElementDataVectorsByQt()

testGetPerTaxonCount

public final void testGetPerTaxonCount()

testGetQuantitationTypes

public final void testGetQuantitationTypes()

testGetPreferredQuantitationType

public void testGetPreferredQuantitationType()

testGetBioMaterialCount

public void testGetBioMaterialCount()

testGetQuantitationTypeCount

public void testGetQuantitationTypeCount()

testGetDesignElementDataVectorCount

public void testGetDesignElementDataVectorCount()

testGetRawExpressionDataVectors

public final void testGetRawExpressionDataVectors()

testGetFilterableProperties

public void testGetFilterableProperties()

testGetFilterablePropertyType

public void testGetFilterablePropertyType()

testGetFilter

public final void testGetFilter()

EE service has a few extensions for supporting various filtering strategies in the frontend, so we need to test them here.

testLoadValueObjectsByIds

public final void testLoadValueObjectsByIds()

testLoadValueObjectsByCharacteristic

public void testLoadValueObjectsByCharacteristic()

testLoadValueObjectsByFactorValueCharacteristic

public void testLoadValueObjectsByFactorValueCharacteristic()

testLoadValueObjectsBySampleUsedCharacteristic

public void testLoadValueObjectsBySampleUsedCharacteristic()

testLoadValueObjectsByBioAssay

public void testLoadValueObjectsByBioAssay()

testLoadBlacklistedValueObjects

public void testLoadBlacklistedValueObjects()

testFilterByAllCharacteristics

public void testFilterByAllCharacteristics()

testFilterByGeeqScore

public void testFilterByGeeqScore()

testFilterBySuitabilityScoreAsAdmin

public void testFilterBySuitabilityScoreAsAdmin()

testFilterBySuitabilityScoreAsNonAdmin

public void testFilterBySuitabilityScoreAsNonAdmin()

testCacheInvalidationWhenACharacteristicIsDeleted

public void testCacheInvalidationWhenACharacteristicIsDeleted()
                                                       throws TimeoutException

Throws:

TimeoutException

testSaveWithTransientEntity

public void testSaveWithTransientEntity()

testUpdateWithTransientEntity

public void testUpdateWithTransientEntity()

testRemoveExperimentInSet

public void testRemoveExperimentInSet()

testRemoveExperimentInSingletonSet

public void testRemoveExperimentInSingletonSet()