Class ExternalFileGeneLoaderServiceTest

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.genome.gene.ExternalFileGeneLoaderServiceTest

public class ExternalFileGeneLoaderServiceTest
extends BaseSpringContextTest5

Test that Gemma can load genes from an external gene file with format : #GeneSymbol GeneName Uniprot ZYX ZYXIN Q15942 ZXDC ZXD FAMILY ZINC FINGER C Q8C8V1

Author:

ldonnison

Field Summary

Fields inherited from class BaseSpringContextTest5

arrayDesignPersister, externalDatabaseService, log, persisterHelper, taxonService, testHelper

Constructor Summary

Constructors

Constructor	Description
ExternalFileGeneLoaderServiceTest()

Method Summary

Modifier and Type	Method	Description
void	setUp()
void	testFileIncorrectFormatIllegalArgumentExceptionException()
void	testLoad()
void	testLoadGeneFileNotFoundIOException()
void	testTaxonNotFoundIllegalArgumentExceptionException()

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

ExternalFileGeneLoaderServiceTest

public ExternalFileGeneLoaderServiceTest()

Method Details

setUp

@BeforeEach
public void setUp()
           throws Exception

Throws:

Exception

testFileIncorrectFormatIllegalArgumentExceptionException

@Test
public void testFileIncorrectFormatIllegalArgumentExceptionException()

testLoad

@Test
public void testLoad()
              throws Exception

Throws:

Exception

testLoadGeneFileNotFoundIOException

@Test
public void testLoadGeneFileNotFoundIOException()
                                         throws Exception

Throws:

Exception

testTaxonNotFoundIllegalArgumentExceptionException

@Test
public void testTaxonNotFoundIllegalArgumentExceptionException()