Package ubic.gemma.rest

Class DatasetsWebServiceTest

java.lang.Object
org.glassfish.jersey.test.JerseyTest
ubic.gemma.rest.util.BaseJerseyTest
ubic.gemma.rest.DatasetsWebServiceTest
All Implemented Interfaces:
org.springframework.beans.factory.Aware, org.springframework.context.ApplicationContextAware
@ContextConfiguration @TestExecutionListeners(WithSecurityContextTestExecutionListener.class) public class DatasetsWebServiceTest extends BaseJerseyTest

  • Constructor Details

    • DatasetsWebServiceTest

      public DatasetsWebServiceTest()

  • Method Details

    • setUpMocks

      public void setUpMocks() throws TimeoutException
      Throws:
      TimeoutException

    • resetMocks

      public void resetMocks()

    • testGetDatasets

      public void testGetDatasets()

    • testGetDatasetsWithQuery

      public void testGetDatasetsWithQuery() throws SearchException, TimeoutException
      Throws:
      SearchException
      TimeoutException

    • testGetDatasetsWithQueryAndSort

      public void testGetDatasetsWithQueryAndSort() throws SearchException, TimeoutException
      Throws:
      SearchException
      TimeoutException

    • testGetDatasetsWithEmptyQuery

      public void testGetDatasetsWithEmptyQuery()

    • testGetDatasetsWhenSliceHasNoLimit

      public void testGetDatasetsWhenSliceHasNoLimit()

    • testGetDatasetsOrderedByGeeqScore

      public void testGetDatasetsOrderedByGeeqScore()

    • testGetDatasetsWhenInferenceTimeoutThenProduce503ServiceUnavailable

      public void testGetDatasetsWhenInferenceTimeoutThenProduce503ServiceUnavailable() throws TimeoutException
      Throws:
      TimeoutException

    • testGetDatasetsPlatformsUsageStatistics

      public void testGetDatasetsPlatformsUsageStatistics() throws TimeoutException
      Throws:
      TimeoutException

    • testGetDatasetsAnnotationsWithRetainMentionedTerms

      public void testGetDatasetsAnnotationsWithRetainMentionedTerms() throws TimeoutException
      Throws:
      TimeoutException

    • testGetDatasetsAnnotations

      public void testGetDatasetsAnnotations() throws TimeoutException
      Throws:
      TimeoutException

    • testGetDatasetsAnnotationWhenLimitExceedHardCap

      public void testGetDatasetsAnnotationWhenLimitExceedHardCap()

    • testGetDatasetsAnnotationsWhenMaxFrequencyIsSuppliedLimitMustUseMaximum

      public void testGetDatasetsAnnotationsWhenMaxFrequencyIsSuppliedLimitMustUseMaximum() throws TimeoutException
      Throws:
      TimeoutException

    • testGetDatasetsAnnotationsWithLimitIsSupplied

      public void testGetDatasetsAnnotationsWithLimitIsSupplied() throws TimeoutException
      Throws:
      TimeoutException

    • testGetDatasetsAnnotationsForUncategorizedTerms

      public void testGetDatasetsAnnotationsForUncategorizedTerms() throws TimeoutException
      Throws:
      TimeoutException

    • testGetDatasetsCategories

      public void testGetDatasetsCategories()

    • testGetDatasetQuantitationTypes

      public void testGetDatasetQuantitationTypes()

    • testGetDatasetProcessedExpression

      public void testGetDatasetProcessedExpression() throws IOException, URISyntaxException, InterruptedException, TimeoutException, FilteringException
      Throws:
      IOException
      URISyntaxException
      InterruptedException
      TimeoutException
      FilteringException

    • testGetDatasetProcessedExpressionWhenNoProcessedVectorsExist

      public void testGetDatasetProcessedExpressionWhenNoProcessedVectorsExist()

    • testGetDatasetRawExpression

      public void testGetDatasetRawExpression() throws IOException, URISyntaxException, InterruptedException, TimeoutException
      Throws:
      IOException
      URISyntaxException
      InterruptedException
      TimeoutException

    • testGetDatasetRawExpressionByQuantitationTypeWhenQtIsNotFromTheDataset

      public void testGetDatasetRawExpressionByQuantitationTypeWhenQtIsNotFromTheDataset()

    • testGetDatasetRawExpressionByQuantitationType

      public void testGetDatasetRawExpressionByQuantitationType() throws IOException, URISyntaxException, InterruptedException, TimeoutException
      Throws:
      IOException
      URISyntaxException
      InterruptedException
      TimeoutException

    • testGetBlacklistedDatasets

      public void testGetBlacklistedDatasets()

    • testGetDatasetAnnotations

      public void testGetDatasetAnnotations()

    • testGetDatasetsDifferentialAnalysisResultsExpressionForGene

      public void testGetDatasetsDifferentialAnalysisResultsExpressionForGene()

    • testGetDatasetsDifferentialAnalysisResultsExpressionForGeneInTaxa

      public void testGetDatasetsDifferentialAnalysisResultsExpressionForGeneInTaxa()

    • testGetDatasetsAnalysisResultSets

      public void testGetDatasetsAnalysisResultSets()

    • testRefreshDataset

      @WithMockUser public void testRefreshDataset()

    • testGetDatasetSingleCellData

      public void testGetDatasetSingleCellData() throws InterruptedException, TimeoutException, URISyntaxException, IOException
      Throws:
      InterruptedException
      TimeoutException
      URISyntaxException
      IOException

    • testGetDatasetSingleCellDataAsDownload

      public void testGetDatasetSingleCellDataAsDownload() throws InterruptedException, TimeoutException, URISyntaxException, IOException
      Throws:
      InterruptedException
      TimeoutException
      URISyntaxException
      IOException

    • testGetDatasetSingleCellDataAsMex

      public void testGetDatasetSingleCellDataAsMex() throws InterruptedException, TimeoutException, URISyntaxException, IOException
      Throws:
      InterruptedException
      TimeoutException
      URISyntaxException
      IOException

    • testGetDatasetSubSetGroups

      public void testGetDatasetSubSetGroups()

    • testGetDatasetSubSetGroup

      public void testGetDatasetSubSetGroup()

    • testGetDatasetSubSets

      public void testGetDatasetSubSets()

    • testGetDatasetSubSet

      public void testGetDatasetSubSet()

    • testGetDatasetSubSetSamples

      public void testGetDatasetSubSetSamples()

    • testPreviewDatasetDesignChangeNoOp

      public void testPreviewDatasetDesignChangeNoOp()

    • testPreviewDatasetDesignChangeWithBlockers

      public void testPreviewDatasetDesignChangeWithBlockers()

    • testPreviewDatasetDesignChangeReportsDeletions

      public void testPreviewDatasetDesignChangeReportsDeletions()

    • testPreviewDatasetDesignChangeWithEmptyBodyIs400

      public void testPreviewDatasetDesignChangeWithEmptyBodyIs400()

    • testPreviewDatasetDesignChangeWithUnknownDatasetIs404

      public void testPreviewDatasetDesignChangeWithUnknownDatasetIs404()

    • testGetDatasetAuditEvents

      public void testGetDatasetAuditEvents()

    • testGetDatasetAuditEventsWhenEmpty

      public void testGetDatasetAuditEventsWhenEmpty()

    • testGetDatasetAuditEventsWithUnknownDatasetIs404

      public void testGetDatasetAuditEventsWithUnknownDatasetIs404()

    • testGetDatasetCurationDetails

      @WithMockUser public void testGetDatasetCurationDetails()

    • testGetDatasetCurationDetailsExposesCurationNoteForAdmin

      @WithMockUser(authorities="GROUP_ADMIN") public void testGetDatasetCurationDetailsExposesCurationNoteForAdmin()

    • testGetDatasetCurationDetailsWithUnknownDatasetIs404

      @WithMockUser public void testGetDatasetCurationDetailsWithUnknownDatasetIs404()

    • testUpdateDatasetCurationDetailsSetsTroubled

      @WithMockUser(authorities="GROUP_ADMIN") public void testUpdateDatasetCurationDetailsSetsTroubled()

    • testUpdateDatasetCurationDetailsClearsTroubled

      @WithMockUser(authorities="GROUP_ADMIN") public void testUpdateDatasetCurationDetailsClearsTroubled()

    • testUpdateDatasetCurationDetailsSkipsNoOpTroubled

      @WithMockUser(authorities="GROUP_ADMIN") public void testUpdateDatasetCurationDetailsSkipsNoOpTroubled()

    • testUpdateDatasetCurationDetailsSetsNeedsAttention

      @WithMockUser(authorities="GROUP_ADMIN") public void testUpdateDatasetCurationDetailsSetsNeedsAttention()

    • testUpdateDatasetCurationDetailsClearsNeedsAttention

      @WithMockUser(authorities="GROUP_ADMIN") public void testUpdateDatasetCurationDetailsClearsNeedsAttention()

    • testUpdateDatasetCurationDetailsUpdatesCurationNote

      @WithMockUser(authorities="GROUP_ADMIN") public void testUpdateDatasetCurationDetailsUpdatesCurationNote()

    • testUpdateDatasetCurationDetailsAppliesMultipleChanges

      @WithMockUser(authorities="GROUP_ADMIN") public void testUpdateDatasetCurationDetailsAppliesMultipleChanges()

    • testUpdateDatasetCurationDetailsWithEmptyBodyIs400

      @WithMockUser(authorities="GROUP_ADMIN") public void testUpdateDatasetCurationDetailsWithEmptyBodyIs400()

    • testUpdateDatasetCurationDetailsWithUnknownDatasetIs404

      @WithMockUser(authorities="GROUP_ADMIN") public void testUpdateDatasetCurationDetailsWithUnknownDatasetIs404()

    • testUpdateDatasetPermissionsMakesPublic

      @WithMockUser(authorities="GROUP_ADMIN") public void testUpdateDatasetPermissionsMakesPublic()

    • testUpdateDatasetPermissionsMakesPrivate

      @WithMockUser(authorities="GROUP_ADMIN") public void testUpdateDatasetPermissionsMakesPrivate()

    • testUpdateDatasetPermissionsReturnsCurrentStateWhenIsPublicOmitted

      @WithMockUser(authorities="GROUP_ADMIN") public void testUpdateDatasetPermissionsReturnsCurrentStateWhenIsPublicOmitted()

    • testUpdateDatasetPermissionsWithEmptyBodyIs400

      @WithMockUser(authorities="GROUP_ADMIN") public void testUpdateDatasetPermissionsWithEmptyBodyIs400()

    • testUpdateDatasetPermissionsWithUnknownDatasetIs404

      @WithMockUser(authorities="GROUP_ADMIN") public void testUpdateDatasetPermissionsWithUnknownDatasetIs404()

    • testGetDatasetPipelineStatusReturnsAllStepsWithNotRunOrNotApplicable

      @WithMockUser public void testGetDatasetPipelineStatusReturnsAllStepsWithNotRunOrNotApplicable()

    • testGetDatasetPipelineStatusMissingValueApplicableForTwoColor

      @WithMockUser public void testGetDatasetPipelineStatusMissingValueApplicableForTwoColor()

    • testGetDatasetPipelineStatusPreprocessOk

      @WithMockUser public void testGetDatasetPipelineStatusPreprocessOk()

    • testGetDatasetPipelineStatusPcaFailed

      @WithMockUser public void testGetDatasetPipelineStatusPcaFailed()

    • testGetDatasetPipelineStatusPicksLatestEvent

      @WithMockUser public void testGetDatasetPipelineStatusPicksLatestEvent()

    • testGetDatasetPipelineStatusIncludesConvenienceFields

      @WithMockUser public void testGetDatasetPipelineStatusIncludesConvenienceFields()

    • testGetDatasetPipelineStatusAdminSeesCurationNote

      @WithMockUser(authorities="GROUP_ADMIN") public void testGetDatasetPipelineStatusAdminSeesCurationNote()

    • testGetDatasetPipelineStatusNonAdminDoesNotSeeCurationNote

      @WithMockUser public void testGetDatasetPipelineStatusNonAdminDoesNotSeeCurationNote()

    • testGetDatasetPipelineStatusWithUnknownDatasetIs404

      @WithMockUser public void testGetDatasetPipelineStatusWithUnknownDatasetIs404()

    • testGetDatasetGeeq

      @WithMockUser(authorities="GROUP_ADMIN") public void testGetDatasetGeeq()

    • testGetDatasetGeeqWithoutEvent

      @WithMockUser(authorities="GROUP_ADMIN") public void testGetDatasetGeeqWithoutEvent()

    • testGetDatasetGeeqWhenNotComputedIs404

      @WithMockUser(authorities="GROUP_ADMIN") public void testGetDatasetGeeqWhenNotComputedIs404()

    • testGetDatasetGeeqWithUnknownDatasetIs404

      @WithMockUser(authorities="GROUP_ADMIN") public void testGetDatasetGeeqWithUnknownDatasetIs404()

    • testRecomputeDatasetGeeqDefaultModeIsAll

      @WithMockUser(authorities="GROUP_ADMIN") public void testRecomputeDatasetGeeqDefaultModeIsAll()

    • testRecomputeDatasetGeeqWithSpecificMode

      @WithMockUser(authorities="GROUP_ADMIN") public void testRecomputeDatasetGeeqWithSpecificMode()

    • testRecomputeDatasetGeeqIncludesLastComputed

      @WithMockUser(authorities="GROUP_ADMIN") public void testRecomputeDatasetGeeqIncludesLastComputed()

    • testRecomputeDatasetGeeqWithUnknownDatasetIs404

      @WithMockUser(authorities="GROUP_ADMIN") public void testRecomputeDatasetGeeqWithUnknownDatasetIs404()

    • testRunDatasetPreprocess

      @WithMockUser(authorities="GROUP_ADMIN") public void testRunDatasetPreprocess()

    • testRunDatasetPreprocessWithUnknownDatasetIs404

      @WithMockUser(authorities="GROUP_ADMIN") public void testRunDatasetPreprocessWithUnknownDatasetIs404()

    • testRunDatasetDiagnosticsSetsFlag

      @WithMockUser(authorities="GROUP_ADMIN") public void testRunDatasetDiagnosticsSetsFlag()

    • testRunDatasetBatchInformationFetch

      @WithMockUser(authorities="GROUP_ADMIN") public void testRunDatasetBatchInformationFetch()

    • testRunDatasetDifferentialAnalysisWithoutBodyUsesAllNonBatchFactors

      @WithMockUser(authorities="GROUP_ADMIN") public void testRunDatasetDifferentialAnalysisWithoutBodyUsesAllNonBatchFactors()

    • testRunDatasetDifferentialAnalysisWithoutDesignIs400

      @WithMockUser(authorities="GROUP_ADMIN") public void testRunDatasetDifferentialAnalysisWithoutDesignIs400()

    • testRunDatasetDifferentialAnalysisRejectsUnknownFactorId

      @WithMockUser(authorities="GROUP_ADMIN") public void testRunDatasetDifferentialAnalysisRejectsUnknownFactorId()

    • testRunDatasetDifferentialAnalysisRejectsSubsetFactorInFactorIds

      @WithMockUser(authorities="GROUP_ADMIN") public void testRunDatasetDifferentialAnalysisRejectsSubsetFactorInFactorIds()

    • testRedoDatasetDifferentialAnalysis

      @WithMockUser(authorities="GROUP_ADMIN") public void testRedoDatasetDifferentialAnalysis()

    • testRedoDatasetDifferentialAnalysisWithUnknownAnalysisIs404

      @WithMockUser(authorities="GROUP_ADMIN") public void testRedoDatasetDifferentialAnalysisWithUnknownAnalysisIs404()

    • testRemoveDatasetDifferentialAnalysis

      @WithMockUser(authorities="GROUP_ADMIN") public void testRemoveDatasetDifferentialAnalysis()

    • testRemoveDatasetDifferentialAnalysisWithUnknownAnalysisIs404

      @WithMockUser(authorities="GROUP_ADMIN") public void testRemoveDatasetDifferentialAnalysisWithUnknownAnalysisIs404()

    • testGetDatasetDesignJson

      public void testGetDatasetDesignJson()

    • testGetDatasetDesignDefaultIsJson

      public void testGetDatasetDesignDefaultIsJson()

    • testGetDatasetDesignJsonReturnsNotFoundWhenDesignMissing

      public void testGetDatasetDesignJsonReturnsNotFoundWhenDesignMissing()

    • testGetDatasetDesignJsonWithUnknownDatasetIs404

      public void testGetDatasetDesignJsonWithUnknownDatasetIs404()

    • testReplaceDatasetDesignHappyPath

      @WithMockUser(authorities="GROUP_ADMIN") public void testReplaceDatasetDesignHappyPath()

    • testReplaceDatasetDesignReturnsBadRequestOnBlockers

      @WithMockUser(authorities="GROUP_ADMIN") public void testReplaceDatasetDesignReturnsBadRequestOnBlockers()

    • testReplaceDatasetDesignReturns409WhenForceRequired

      @WithMockUser(authorities="GROUP_ADMIN") public void testReplaceDatasetDesignReturns409WhenForceRequired()

    • testReplaceDatasetDesignWithForceAppliesEvenWithCascade

      @WithMockUser(authorities="GROUP_ADMIN") public void testReplaceDatasetDesignWithForceAppliesEvenWithCascade()

    • testReplaceDatasetDesignWithEmptyBodyIs400

      @WithMockUser(authorities="GROUP_ADMIN") public void testReplaceDatasetDesignWithEmptyBodyIs400()

    • testReplaceDatasetDesignWithUnknownDatasetIs404

      @WithMockUser(authorities="GROUP_ADMIN") public void testReplaceDatasetDesignWithUnknownDatasetIs404()

    • testGetDatasetAllPublications

      public void testGetDatasetAllPublications()