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Merge pull request #2439 from opencb/TASK-464 #910

Merge pull request #2439 from opencb/TASK-464

Merge pull request #2439 from opencb/TASK-464 #910

Triggered via push May 14, 2024 17:35
Status Failure
Total duration 1h 50m 20s
Artifacts 1

develop.yml

on: push
test  /  Execute Sonar Analysis
7m 36s
test / Execute Sonar Analysis
test  /  Execute JUnit and Jacoco tests
1h 46m
test / Execute JUnit and Jacoco tests
deploy-docker  /  Push Docker image
deploy-docker / Push Docker image
deploy-maven  /  Deploy to Maven and GitHub Packages
deploy-maven / Deploy to Maven and GitHub Packages
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2 errors and 2 warnings
VariantFileIndexerOperationManagerTest.testDeleteIndexedFile: opencga-analysis/src/test/java/org/opencb/opencga/analysis/variant/manager/operations/VariantFileIndexerOperationManagerTest.java#L190
Expected: (an instance of org.opencb.opencga.catalog.exceptions.CatalogException and exception with message a string containing "The status is READY") but: exception with message a string containing "The status is READY" message was "Could not unlink file 'data:vcfs:1-500.filtered.10k.chr22.phase3_shapeit2_mvncall_integrated_v5.20130502.genotypes.vcf.gz'" Stacktrace was: org.opencb.opencga.catalog.exceptions.CatalogException: Could not unlink file 'data:vcfs:1-500.filtered.10k.chr22.phase3_shapeit2_mvncall_integrated_v5.20130502.genotypes.vcf.gz' at org.opencb.opencga.catalog.managers.FileManager.unlink(FileManager.java:1838) at org.opencb.opencga.analysis.variant.manager.operations.VariantFileIndexerOperationManagerTest.testDeleteIndexedFile(VariantFileIndexerOperationManagerTest.java:190) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:498) at org.junit.runners.model.FrameworkMethod$1.runReflectiveCall(FrameworkMethod.java:59) at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12) at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56) at org.junit.internal.runners.statements.InvokeMethod.evaluate(InvokeMethod.java:17) at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:26) at org.junit.internal.runners.statements.RunAfters.evaluate(RunAfters.java:27) at org.junit.rules.TestWatcher$1.evaluate(TestWatcher.java:61) at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258) at org.junit.rules.ExternalResource$1.evaluate(ExternalResource.java:54) at org.junit.runners.ParentRunner$3.evaluate(ParentRunner.java:306) at org.junit.runners.BlockJUnit4ClassRunner$1.evaluate(BlockJUnit4ClassRunner.java:100) at org.junit.runners.ParentRunner.runLeaf(ParentRunner.java:366) at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:103) at org.junit.runners.BlockJUnit4ClassRunner.runChild(BlockJUnit4ClassRunner.java:63) at org.junit.runners.ParentRunner$4.run(ParentRunner.java:331) at org.junit.runners.ParentRunner$1.schedule(ParentRunner.java:79) at org.junit.runners.ParentRunner.runChildren(ParentRunner.java:329) at org.junit.runners.ParentRunner.access$100(ParentRunner.java:66) at org.junit.runners.ParentRunner$2.evaluate(ParentRunner.java:293) at org.junit.runners.ParentRunner$3.evaluate(ParentRunner.java:306) at org.junit.runners.ParentRunner.run(ParentRunner.java:413) at org.junit.runners.Suite.runChild(Suite.java:128) at org.junit.runners.Suite.runChild(Suite.java:27) at org.junit.runners.ParentRunner$4.run(ParentRunner.java:331) at org.junit.runners.ParentRunner$1.schedule(ParentRunner.java:79) at org.junit.runners.ParentRunner.runChildren(ParentRunner.java:329) at org.junit.runners.ParentRunner.access$100(ParentRunner.java:66) at org.junit.runners.ParentRunner$2.evaluate(ParentRunner.java:293) at org.junit.runners.ParentRunner$3.evaluate(ParentRunner.java:306) at org.junit.runners.ParentRunner.run(ParentRunner.java:413) at org.apache.maven.surefire.junitcore.JUnitCore.run(JUnitCore.java:49) at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.createRequestAndRun(JUnitCoreWrapper.java:120) at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.executeEager(JUnitCoreWrapper.java:95) at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:75) at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:69) at org.apache.maven.surefire.junitcore.JUnitCoreProvider.invoke(JUnitCoreProvider.java:146) at org.apache.maven.surefire.booter.ForkedBooter.runSuitesInProcess(ForkedBooter.java:385) at org.apache.maven.surefire.booter.ForkedBooter.execute(ForkedBooter.java:162) at org.apache.maven.surefire.booter.ForkedBooter.run(ForkedBooter.java:507) at org.apache.maven.surefire.booter.ForkedBooter.main(ForkedBooter.java:495) Caused by: org.opencb.opencga.catalog.exceptions.CatalogException: Cannot delete file: 1-500.filtered.10k.chr22.phase3_shapeit2_mvncall_integrated_v5.20130502.genotypes.vcf.gz. The status is READY at org.opencb.opencga.catalog.managers.FileManager.checkValidStatusForDeletion(FileManager.java:3165) at org.opencb.opencga.catalog.managers.FileManager.checkCanDeleteFile(FileManager.java:3046) at org.opencb.opencga.catalog.managers.FileManager.unlink(FileManager.java:1828) ... 45 more
test / Execute JUnit and Jacoco tests
There were 1 failed tests
test / Execute Sonar Analysis
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v3, actions/setup-java@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
test / Execute JUnit and Jacoco tests
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v3, actions/setup-java@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.

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