Class ExpressionExperimentSetServiceTest

java.lang.Object

ubic.gemma.core.util.test.BaseTest5

ubic.gemma.core.util.test.BaseIntegrationTest5

ubic.gemma.core.util.test.BaseSpringContextTest5

ubic.gemma.persistence.service.expression.experiment.ExpressionExperimentSetServiceTest

public class ExpressionExperimentSetServiceTest
extends BaseSpringContextTest5

Tests for methods that perform operations on or with expressionExperiment sets

Author:

tvrossum

Field Summary

Fields inherited from class BaseSpringContextTest5

arrayDesignPersister, externalDatabaseService, log, persisterHelper, taxonService, testHelper

Constructor Summary

Constructors

Constructor	Description
ExpressionExperimentSetServiceTest()

Method Summary

Modifier and Type	Method	Description
void	setUp()
void	tearDown()
void	testAddingExperimentOfWrongTaxonUpdate()
void	testAddingExperimentOfWrongTaxonUpdateDatabaseEntityMembers()
void	testASetWithNoTaxonMaySpanThem()	A set that declares a taxon keeps the constraint: no mice in a rat set.
void	testIsAutomaticallyGenerated()
void	testUpdate()

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

ExpressionExperimentSetServiceTest

public ExpressionExperimentSetServiceTest()

Method Details

setUp

@BeforeEach
public void setUp()
           throws Exception

Throws:

Exception

tearDown

@AfterEach
public void tearDown()

testUpdate

@Test
public void testUpdate()

testASetWithNoTaxonMaySpanThem

@Test
public void testASetWithNoTaxonMaySpanThem()

A set that declares a taxon keeps the constraint: no mice in a rat set. The two tests below pin that and must keep passing.

A set that declares NO taxon may span them. The constraint is a scope a set opts into, not a property every set must have — a curation cohort is the counter-example that forced it: the gold reference set is 179 human, 254 mouse and 16 rat, and there is nothing wrong with it. Before this, creating one was impossible and the failure was an UnsupportedOperationException reading "EESets with mixed taxa are not supported".

testAddingExperimentOfWrongTaxonUpdate

@Test
public void testAddingExperimentOfWrongTaxonUpdate()

testAddingExperimentOfWrongTaxonUpdateDatabaseEntityMembers

@Test
public void testAddingExperimentOfWrongTaxonUpdateDatabaseEntityMembers()

testIsAutomaticallyGenerated

@Test
public void testIsAutomaticallyGenerated()