Class CompositeSequenceGeneMapperServiceTest

java.lang.Object

ubic.gemma.core.util.test.BaseTest5

ubic.gemma.core.util.test.BaseIntegrationTest5

ubic.gemma.core.util.test.BaseSpringContextTest5

ubic.gemma.core.loader.expression.geo.AbstractGeoServiceTest5

ubic.gemma.core.analysis.service.CompositeSequenceGeneMapperServiceTest

@Tag("goldenPath") @Tag("slow")
public class CompositeSequenceGeneMapperServiceTest
extends AbstractGeoServiceTest5

This test makes use of the ArrayDesignProbeMapperServiceImpl. These tests add array data and gene data to the database to be used for testing. GPL96.

Author:

keshav

Field Summary

Fields inherited from class BaseSpringContextTest5

arrayDesignPersister, externalDatabaseService, log, persisterHelper, taxonService, testHelper

Constructor Summary

Constructors

Constructor	Description
CompositeSequenceGeneMapperServiceTest()

Method Summary

Modifier and Type	Method	Description
void	cleanup()
void	setUp()
void	testGetCompositeSequencesByGeneId()	Tests finding the composite sequences for a given gene id.
void	testGetGenesForCompositeSequence()	Tests finding all genes for a given composite sequence.

Methods inherited from class AbstractGeoServiceTest5

getTestFileBasePath, getTestFileBasePath

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

CompositeSequenceGeneMapperServiceTest

public CompositeSequenceGeneMapperServiceTest()

Method Details

cleanup

@AfterEach
public void cleanup()

setUp

@BeforeEach
public void setUp()
           throws Exception

Throws:

Exception

testGetCompositeSequencesByGeneId

@Test
public void testGetCompositeSequencesByGeneId()

Tests finding the composite sequences for a given gene id.

testGetGenesForCompositeSequence

@Test
public void testGetGenesForCompositeSequence()

Tests finding all genes for a given composite sequence.