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storage: Fix compilation issues #TASK-6765

storage: Fix compilation issues #TASK-6765 #2118

GitHub Actions / Surefire tests report hdp3.1 runShortTests failed Sep 20, 2024 in 0s

513 tests run, 13 skipped, 127 failed.

Annotations

Check failure on line 88 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/io/VariantWriterFactoryTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

VariantWriterFactoryTest.testContigLengthNull 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.io.VariantWriterFactoryTest.testContigLengthNull(VariantWriterFactoryTest.java:88)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.InvokeMethod.evaluate(InvokeMethod.java:17)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 54 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/query/VariantQueryParserTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

VariantQueryParserTest.testParseQuery 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.query.VariantQueryParserTest.setUp(VariantQueryParserTest.java:54)
	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.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 54 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/query/VariantQueryParserTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

VariantQueryParserTest.preProcessGenotypesFilter 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.query.VariantQueryParserTest.setUp(VariantQueryParserTest.java:54)
	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.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 54 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/query/VariantQueryParserTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

VariantQueryParserTest.testParseClinicalCombinations 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.query.VariantQueryParserTest.setUp(VariantQueryParserTest.java:54)
	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.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 59 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/score/VariantScoreTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

VariantScoreTest.testLoadRemove 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.score.VariantScoreTest.setUp(VariantScoreTest.java:59)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 59 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/score/VariantScoreTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

VariantScoreTest.testLoadResume 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.score.VariantScoreTest.setUp(VariantScoreTest.java:59)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 59 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/score/VariantScoreTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

VariantScoreTest.testLoadRunningRemoveFail 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.score.VariantScoreTest.setUp(VariantScoreTest.java:59)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 59 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/score/VariantScoreTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

VariantScoreTest.testLoadRunningRemoveForce 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.score.VariantScoreTest.setUp(VariantScoreTest.java:59)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 59 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/score/VariantScoreTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

VariantScoreTest.testLoadErrorRemove 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.score.VariantScoreTest.setUp(VariantScoreTest.java:59)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 59 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/score/VariantScoreTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

VariantScoreTest.testLoadTwice 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.score.VariantScoreTest.setUp(VariantScoreTest.java:59)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 59 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/score/VariantScoreTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

VariantScoreTest.testLoadRemoveError 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.score.VariantScoreTest.setUp(VariantScoreTest.java:59)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 63 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/search/solr/SolrQueryParserTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

SolrQueryParserTest.parsePhylopAndGene 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.search.solr.SolrQueryParserTest.init(SolrQueryParserTest.java:63)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 63 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/search/solr/SolrQueryParserTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

SolrQueryParserTest.parsePhylopAndBiotype 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.search.solr.SolrQueryParserTest.init(SolrQueryParserTest.java:63)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 63 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/search/solr/SolrQueryParserTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

SolrQueryParserTest.parseBiotype 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.search.solr.SolrQueryParserTest.init(SolrQueryParserTest.java:63)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 63 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/search/solr/SolrQueryParserTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

SolrQueryParserTest.parseVariantScoreWithoutStudy 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.search.solr.SolrQueryParserTest.init(SolrQueryParserTest.java:63)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 63 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/search/solr/SolrQueryParserTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

SolrQueryParserTest.parseExactSiftDesc 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.search.solr.SolrQueryParserTest.init(SolrQueryParserTest.java:63)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 63 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/search/solr/SolrQueryParserTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

SolrQueryParserTest.parseGene 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.search.solr.SolrQueryParserTest.init(SolrQueryParserTest.java:63)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 63 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/search/solr/SolrQueryParserTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

SolrQueryParserTest.parseHPOs 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.search.solr.SolrQueryParserTest.init(SolrQueryParserTest.java:63)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 63 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/search/solr/SolrQueryParserTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

SolrQueryParserTest.parseType 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.search.solr.SolrQueryParserTest.init(SolrQueryParserTest.java:63)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 63 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/search/solr/SolrQueryParserTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

SolrQueryParserTest.parseXref 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.search.solr.SolrQueryParserTest.init(SolrQueryParserTest.java:63)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 63 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/search/solr/SolrQueryParserTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

SolrQueryParserTest.parseExactSiftDesc2 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.search.solr.SolrQueryParserTest.init(SolrQueryParserTest.java:63)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 63 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/search/solr/SolrQueryParserTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

SolrQueryParserTest.parseWrongFormat 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.search.solr.SolrQueryParserTest.init(SolrQueryParserTest.java:63)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 63 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/search/solr/SolrQueryParserTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

SolrQueryParserTest.parseFacetRangeProteinSubst 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.search.solr.SolrQueryParserTest.init(SolrQueryParserTest.java:63)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 63 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/search/solr/SolrQueryParserTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

SolrQueryParserTest.parsePopMafScoreMissing 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.search.solr.SolrQueryParserTest.init(SolrQueryParserTest.java:63)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)

Check failure on line 63 in opencga-storage/opencga-storage-core/src/test/java/org/opencb/opencga/storage/core/variant/search/solr/SolrQueryParserTest.java

See this annotation in the file changed.

@github-actions github-actions / Surefire tests report hdp3.1 runShortTests

SolrQueryParserTest.parseAnnotCT1 

1
Raw output 
java.lang.ArrayIndexOutOfBoundsException: 1
	at org.opencb.commons.utils.VersionUtils$Version.<init>(VersionUtils.java:68)
	at org.opencb.opencga.core.config.storage.SampleIndexConfiguration.defaultConfiguration(SampleIndexConfiguration.java:33)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.initSampleIndexConfigurationIfNeeded(VariantStorageMetadataManager.java:270)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.lambda$createStudy$10(VariantStorageMetadataManager.java:226)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager$UpdateConsumer.lambda$toFunction$0(VariantStorageMetadataManager.java:289)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:592)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.updateProjectMetadata(VariantStorageMetadataManager.java:573)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:223)
	at org.opencb.opencga.storage.core.metadata.VariantStorageMetadataManager.createStudy(VariantStorageMetadataManager.java:219)
	at org.opencb.opencga.storage.core.variant.search.solr.SolrQueryParserTest.init(SolrQueryParserTest.java:63)
	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$1.runReflectiveCall(FrameworkMethod.java:59)
	at org.junit.internal.runners.model.ReflectiveCallable.run(ReflectiveCallable.java:12)
	at org.junit.runners.model.FrameworkMethod.invokeExplosively(FrameworkMethod.java:56)
	at org.junit.internal.runners.statements.RunBefores.invokeMethod(RunBefores.java:33)
	at org.junit.internal.runners.statements.RunBefores.evaluate(RunBefores.java:24)
	at org.junit.rules.ExpectedException$ExpectedExceptionStatement.evaluate(ExpectedException.java:258)
	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.executeLazy(JUnitCoreWrapper.java:105)
	at org.apache.maven.surefire.junitcore.JUnitCoreWrapper.execute(JUnitCoreWrapper.java:77)
	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)
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