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Update test-analysis.yml

Update test-analysis.yml #771

Triggered via push September 20, 2023 17:34
@juanfeSanahujajuanfeSanahuja
pushed e830904
develop
Status Failure
Total duration 2h 16m 56s
Artifacts 1
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develop.yml

on: push
build  /  Build Java app
10m 10s
build / Build Java app
test  /  Execute Sonar Analysis
10m 33s
test / Execute Sonar Analysis
test  /  Execute JUnit and Jacoco tests
2h 6m
test / Execute JUnit and Jacoco tests
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103 errors
ClinicalInterpretationAnalysisTest.: opencga-analysis/src/test/java/org/opencb/opencga/analysis/clinical/ClinicalInterpretationAnalysisTest.java#L79
Error computing pedigree graph for family family
ExomiserInterpretationAnalysisTest.: opencga-analysis/src/test/java/org/opencb/opencga/analysis/clinical/exomiser/ExomiserInterpretationAnalysisTest.java#L49
Error computing pedigree graph for family family
VariantCatalogQueryUtilsTest.: opencga-analysis/src/test/java/org/opencb/opencga/analysis/variant/manager/VariantCatalogQueryUtilsTest.java#L137
Error computing pedigree graph for family f1
ClinicalAnalysisManagerTest.deleteClinicalAnalysisWithEmptyInterpretations: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2333
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.createClinicalAnalysisWithPanels: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2531
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.searchClinicalAnalysisByProband: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2265
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updatePrimarySecondaryLockedInterpretationTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2057
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updateCustomConsentTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1431
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.createAndTestStatusIdIsNotNull: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L232
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updateInterpretationFindingsTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1616
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.deleteLockedClinicalAnalysis: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2428
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.searchInterpretationVersion: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1734
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.createClinicalAnalysisTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1247
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.assignPermissions: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1156
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updateCustomPriorityTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1321
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updateClinicalAnalysisTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1278
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updateInterpretationTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1869
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.sampleNotFoundInMember: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2719
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.deleteClinicalAnalysisWithInterpretations: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2368
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.checkMoreThanOneSample: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2749
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.searchByDisorderTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2452
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.clearSecondaryInterpretation: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1577
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.queryClinicalAnalysisByDate: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L382
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.deleteClinicalAnalysisTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2316
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updateCustomStatusTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1299
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.createInterpretationWithPanels: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2567
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.checkFamilyMembersOrder: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2494
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.clearPrimaryInterpretation: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1538
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.revertInterpretationVersion: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1776
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updateDisorder: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2471
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updateInterpretationCustomStatusTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1468
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updatePanelsInClinicalAnalysis: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2586
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.createInterpretationTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1486
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updateCustomFlagTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1344
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.deleteInterpretationTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2207
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.testQueriesInFamilyCase: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2624
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.createMultipleCasesSameFamily: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L265
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.searchClinicalAnalysisByStatus: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2278
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.createClinicalWithMissingSamplesInFamily: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L447
Error computing pedigree graph for family family
FamilyManagerTest.updateDeleteInUseInCATest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L1415
Error computing pedigree graph for family family1
FamilyManagerTest.updateInUseInCATest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L1374
Error computing pedigree graph for family family1
FamilyManagerTest.recalculateRoles: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L1241
Error computing pedigree graph for family Martinez-Martinez
FamilyManagerTest.createFamilyMissingMember: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L1088
Error computing pedigree graph for family Martinez-Martinez
FamilyManagerTest.testRoles: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L594
Error computing pedigree graph for family Martinez-Martinez
FamilyManagerTest.updateFamilyMissingMember: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L1225
Error computing pedigree graph for family Martinez-Martinez
FamilyManagerTest.updateFamilyReferencesInIndividualTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L250
Error computing pedigree graph for family Martinez-Martinez
FamilyManagerTest.updateFamilyMembers: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L1469
Could not update family family: Error computing/updating the pedigree graph for the family family
FamilyManagerTest.disordersDistinctTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L1022
Error computing pedigree graph for family family
FamilyManagerTest.deleteFamilyTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L158
Error computing pedigree graph for family Martinez-Martinez
FamilyManagerTest.updateFamilyDisordersWhenIndividualDisorderIsUpdated: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L976
Error computing pedigree graph for family family
test / Execute JUnit and Jacoco tests
There were 73 failed tests
ClinicalInterpretationAnalysisTest.: opencga-analysis/src/test/java/org/opencb/opencga/analysis/clinical/ClinicalInterpretationAnalysisTest.java#L79
Error computing pedigree graph for family family
ExomiserInterpretationAnalysisTest.: opencga-analysis/src/test/java/org/opencb/opencga/analysis/clinical/exomiser/ExomiserInterpretationAnalysisTest.java#L49
Error computing pedigree graph for family family
VariantCatalogQueryUtilsTest.: opencga-analysis/src/test/java/org/opencb/opencga/analysis/variant/manager/VariantCatalogQueryUtilsTest.java#L137
Error computing pedigree graph for family f1
ClinicalAnalysisManagerTest.deleteClinicalAnalysisWithEmptyInterpretations: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2333
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.createClinicalAnalysisWithPanels: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2531
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.searchClinicalAnalysisByProband: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2265
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updatePrimarySecondaryLockedInterpretationTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2057
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updateCustomConsentTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1431
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.createAndTestStatusIdIsNotNull: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L232
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updateInterpretationFindingsTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1616
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.deleteLockedClinicalAnalysis: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2428
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.searchInterpretationVersion: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1734
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.createClinicalAnalysisTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1247
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.assignPermissions: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1156
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updateCustomPriorityTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1321
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updateClinicalAnalysisTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1278
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updateInterpretationTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1869
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.sampleNotFoundInMember: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2719
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.deleteClinicalAnalysisWithInterpretations: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2368
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.checkMoreThanOneSample: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2749
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.searchByDisorderTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2452
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.clearSecondaryInterpretation: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1577
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.queryClinicalAnalysisByDate: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L382
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.deleteClinicalAnalysisTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2316
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updateCustomStatusTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1299
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.createInterpretationWithPanels: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2567
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.checkFamilyMembersOrder: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2494
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.clearPrimaryInterpretation: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1538
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.revertInterpretationVersion: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1776
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updateDisorder: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2471
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updateInterpretationCustomStatusTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1468
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updatePanelsInClinicalAnalysis: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2586
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.createInterpretationTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1486
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.updateCustomFlagTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L1344
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.deleteInterpretationTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2207
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.testQueriesInFamilyCase: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2624
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.createMultipleCasesSameFamily: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L265
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.searchClinicalAnalysisByStatus: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L2278
Error computing pedigree graph for family family
ClinicalAnalysisManagerTest.createClinicalWithMissingSamplesInFamily: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/ClinicalAnalysisManagerTest.java#L447
Error computing pedigree graph for family family
FamilyManagerTest.updateDeleteInUseInCATest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L1415
Error computing pedigree graph for family family1
FamilyManagerTest.updateInUseInCATest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L1374
Error computing pedigree graph for family family1
FamilyManagerTest.recalculateRoles: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L1241
Error computing pedigree graph for family Martinez-Martinez
FamilyManagerTest.createFamilyMissingMember: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L1088
Error computing pedigree graph for family Martinez-Martinez
FamilyManagerTest.testRoles: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L594
Error computing pedigree graph for family Martinez-Martinez
FamilyManagerTest.updateFamilyMissingMember: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L1225
Error computing pedigree graph for family Martinez-Martinez
FamilyManagerTest.updateFamilyReferencesInIndividualTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L250
Error computing pedigree graph for family Martinez-Martinez
FamilyManagerTest.updateFamilyMembers: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L1469
Could not update family family: Error computing/updating the pedigree graph for the family family
FamilyManagerTest.disordersDistinctTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L1022
Error computing pedigree graph for family family
FamilyManagerTest.deleteFamilyTest: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L158
Error computing pedigree graph for family Martinez-Martinez
FamilyManagerTest.updateFamilyDisordersWhenIndividualDisorderIsUpdated: opencga-catalog/src/test/java/org/opencb/opencga/catalog/managers/FamilyManagerTest.java#L976
Error computing pedigree graph for family family
SampleIndexDuplicatedVariantsTest.test2FilesSampleIndex: opencga-storage/opencga-storage-hadoop/opencga-storage-hadoop-core/src/test/java/org/opencb/opencga/storage/hadoop/variant/index/sample/SampleIndexDuplicatedVariantsTest.java#L66
java.lang.NullPointerException at org.opencb.opencga.storage.hadoop.variant.index.SampleIndexOnlyVariantQueryExecutor$AddMissingDataTask.<init>(SampleIndexOnlyVariantQueryExecutor.java:494)
SampleIndexDuplicatedVariantsTest.test3FilesSampleIndex: opencga-storage/opencga-storage-hadoop/opencga-storage-hadoop-core/src/test/java/org/opencb/opencga/storage/hadoop/variant/index/sample/SampleIndexDuplicatedVariantsTest.java#L108
java.lang.NullPointerException at org.opencb.opencga.storage.hadoop.variant.index.SampleIndexOnlyVariantQueryExecutor$AddMissingDataTask.<init>(SampleIndexOnlyVariantQueryExecutor.java:494)

Artifacts

Produced during runtime
Name Size
build-folder Expired
801 MB