Class DataUpdaterTest

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.loader.expression.DataUpdaterTest

@ExtendWith(NetworkAvailableExtension.class)
public class DataUpdaterTest
extends AbstractGeoServiceTest5

Author:

paul

Field Summary

Fields inherited from class BaseSpringContextTest5

arrayDesignPersister, externalDatabaseService, log, persisterHelper, taxonService, testHelper

Constructor Summary

Constructors

Constructor	Description
DataUpdaterTest()

Method Summary

Modifier and Type	Method	Description
void	tearDown()
void	testAddData()
void	testLoadRNASeqData()
void	testLoadRNASeqDataWithMissingSamples()

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

DataUpdaterTest

public DataUpdaterTest()

Method Details

tearDown

@AfterEach
public void tearDown()

testAddData

@Test
@Tag("slow")
@NetworkAvailable(url="https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi")
public void testAddData()
                 throws Exception

Throws:

Exception

testLoadRNASeqData

@Test
@Tag("slow")
@NetworkAvailable(url="https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi")
public void testLoadRNASeqData()
                        throws Exception

Throws:

Exception

testLoadRNASeqDataWithMissingSamples

@Test
@Tag("slow")
@NetworkAvailable(url="ftp://ftp.ncbi.nlm.nih.gov/geo/series/")
public void testLoadRNASeqDataWithMissingSamples()
                                          throws Exception

Throws:

Exception