Class EBIAlphaFoldTest

Class	Tests	Fail	Error	Time (secs)	% Tests Success
EBIAlphaFoldTest	1515	22	00	11.895	0.866666786.7%

Tests	Started	Status	Time (secs)	Message
EBIAlphaFoldTest.checkImportPAEForStructureEBIAlphaFoldTest.checkImportPAEForStructure	178186540523119 Jun 11:36:45	3FAIL	1.1341.134	no contact map found for AF-0000000203848083-model_v1\|B expected [1] but found [0] no contact map found for AF-0000000203848083-model_v1\|B expected [1] but found [0] java.lang.AssertionError: no contact map found for AF-0000000203848083-model_v1\|B expected [1] but found [0] at org.testng.Assert.fail(Assert.java:94) at org.testng.Assert.failNotEquals(Assert.java:496) at org.testng.Assert.assertEquals(Assert.java:125) at org.testng.Assert.assertEquals(Assert.java:372) at jalview.ws.dbsources.EBIAlphaFoldTest.checkImportPAEForStructure(EBIAlphaFoldTest.java:158) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.base/java.lang.reflect.Method.invoke(Method.java:566) at org.testng.internal.MethodInvocationHelper.invokeMethod(MethodInvocationHelper.java:85) at org.testng.internal.Invoker.invokeMethod(Invoker.java:648) at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:834) at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1142) at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:124) at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:108) at org.testng.TestRunner.privateRun(TestRunner.java:771) at org.testng.TestRunner.run(TestRunner.java:621) at org.testng.SuiteRunner.runTest(SuiteRunner.java:357) at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:352) at org.testng.SuiteRunner.privateRun(SuiteRunner.java:310) at org.testng.SuiteRunner.run(SuiteRunner.java:259) at org.testng.SuiteRunnerWorker.runSuite(SuiteRunnerWorker.java:52) at org.testng.SuiteRunnerWorker.run(SuiteRunnerWorker.java:86) at org.testng.TestNG.runSuitesSequentially(TestNG.java:1176) at org.testng.TestNG.runSuitesLocally(TestNG.java:1101) at org.testng.TestNG.run(TestNG.java:1009) at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.runTests(TestNGTestClassProcessor.java:141) at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.stop(TestNGTestClassProcessor.java:90) at org.gradle.api.internal.tasks.testing.SuiteTestClassProcessor.stop(SuiteTestClassProcessor.java:61) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.base/java.lang.reflect.Method.invoke(Method.java:566) at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:36) at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:24) at org.gradle.internal.dispatch.ContextClassLoaderDispatch.dispatch(ContextClassLoaderDispatch.java:33) at org.gradle.internal.dispatch.ProxyDispatchAdapter$DispatchingInvocationHandler.invoke(ProxyDispatchAdapter.java:94) at com.sun.proxy.$Proxy2.stop(Unknown Source) at org.gradle.api.internal.tasks.testing.worker.TestWorker$3.run(TestWorker.java:193) at org.gradle.api.internal.tasks.testing.worker.TestWorker.executeAndMaintainThreadName(TestWorker.java:129) at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:100) at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:60) at org.gradle.process.internal.worker.child.ActionExecutionWorker.execute(ActionExecutionWorker.java:56) at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:133) at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:71) at worker.org.gradle.process.internal.worker.GradleWorkerMain.run(GradleWorkerMain.java:69) at worker.org.gradle.process.internal.worker.GradleWorkerMain.main(GradleWorkerMain.java:74)
EBIAlphaFoldTest.checkImportPAEToStructureEBIAlphaFoldTest.checkImportPAEToStructure	178186540783619 Jun 11:36:47	3FAIL	0.6030.603	Exception importing paefile 'examples/AlphaFold/AF-Q5VSL9-F1-predicted_aligned_error_v4_cmp.json' Exception importing paefile 'examples/AlphaFold/AF-Q5VSL9-F1-predicted_aligned_error_v4_cmp.json' java.lang.AssertionError: Exception importing paefile 'examples/AlphaFold/AF-Q5VSL9-F1-predicted_aligned_error_v4_cmp.json' at org.testng.Assert.fail(Assert.java:83) at jalview.ws.dbsources.EBIAlphaFoldTest.checkImportPAEToStructure(EBIAlphaFoldTest.java:95) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.base/java.lang.reflect.Method.invoke(Method.java:566) at org.testng.internal.MethodInvocationHelper.invokeMethod(MethodInvocationHelper.java:85) at org.testng.internal.Invoker.invokeMethod(Invoker.java:648) at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:834) at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1142) at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:124) at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:108) at org.testng.TestRunner.privateRun(TestRunner.java:771) at org.testng.TestRunner.run(TestRunner.java:621) at org.testng.SuiteRunner.runTest(SuiteRunner.java:357) at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:352) at org.testng.SuiteRunner.privateRun(SuiteRunner.java:310) at org.testng.SuiteRunner.run(SuiteRunner.java:259) at org.testng.SuiteRunnerWorker.runSuite(SuiteRunnerWorker.java:52) at org.testng.SuiteRunnerWorker.run(SuiteRunnerWorker.java:86) at org.testng.TestNG.runSuitesSequentially(TestNG.java:1176) at org.testng.TestNG.runSuitesLocally(TestNG.java:1101) at org.testng.TestNG.run(TestNG.java:1009) at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.runTests(TestNGTestClassProcessor.java:141) at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.stop(TestNGTestClassProcessor.java:90) at org.gradle.api.internal.tasks.testing.SuiteTestClassProcessor.stop(SuiteTestClassProcessor.java:61) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.base/java.lang.reflect.Method.invoke(Method.java:566) at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:36) at org.gradle.internal.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:24) at org.gradle.internal.dispatch.ContextClassLoaderDispatch.dispatch(ContextClassLoaderDispatch.java:33) at org.gradle.internal.dispatch.ProxyDispatchAdapter$DispatchingInvocationHandler.invoke(ProxyDispatchAdapter.java:94) at com.sun.proxy.$Proxy2.stop(Unknown Source) at org.gradle.api.internal.tasks.testing.worker.TestWorker$3.run(TestWorker.java:193) at org.gradle.api.internal.tasks.testing.worker.TestWorker.executeAndMaintainThreadName(TestWorker.java:129) at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:100) at org.gradle.api.internal.tasks.testing.worker.TestWorker.execute(TestWorker.java:60) at org.gradle.process.internal.worker.child.ActionExecutionWorker.execute(ActionExecutionWorker.java:56) at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:133) at org.gradle.process.internal.worker.child.SystemApplicationClassLoaderWorker.call(SystemApplicationClassLoaderWorker.java:71) at worker.org.gradle.process.internal.worker.GradleWorkerMain.run(GradleWorkerMain.java:69) at worker.org.gradle.process.internal.worker.GradleWorkerMain.main(GradleWorkerMain.java:74) Caused by: java.io.IOException: Stream Closed at java.base/java.io.FileInputStream.readBytes(Native Method) at java.base/java.io.FileInputStream.read(FileInputStream.java:279) at java.base/java.io.BufferedInputStream.fill(BufferedInputStream.java:252) at java.base/java.io.BufferedInputStream.read1(BufferedInputStream.java:292) at java.base/java.io.BufferedInputStream.read(BufferedInputStream.java:351) at java.base/java.io.FilterInputStream.read(FilterInputStream.java:107) at jalview.util.Platform.isGzipStream(Platform.java:602) at jalview.util.Platform.checkForGzipStream(Platform.java:644) at jalview.util.Platform.parseJSON(Platform.java:534) at jalview.ws.dbsources.EBIAlfaFold.parseJSONtoPAEContactMatrix(EBIAlfaFold.java:570) at jalview.ws.dbsources.EBIAlfaFold.importPaeJSONAsContactMatrixToStructure(EBIAlfaFold.java:605) at jalview.ws.dbsources.EBIAlfaFold.importPaeJSONAsContactMatrixToStructure(EBIAlfaFold.java:594) at jalview.ws.dbsources.EBIAlphaFoldTest.__CLR4_4_1rvd1wm3rpc(EBIAlphaFoldTest.java:89) ... 43 more
EBIAlphaFoldTest.checkPAEimportEBIAlphaFoldTest.checkPAEimport	178186540852319 Jun 11:36:48	1PASS	0.760.76
EBIAlphaFoldTest.checkImportPAEForStructureEBIAlphaFoldTest.checkImportPAEForStructure	178186540346019 Jun 11:36:43	1PASS	1.771.77
EBIAlphaFoldTest.checkImportPAEForStructureEBIAlphaFoldTest.checkImportPAEForStructure	178186539898119 Jun 11:36:38	1PASS	2.5572.557
EBIAlphaFoldTest.checkImportPAEToStructureEBIAlphaFoldTest.checkImportPAEToStructure	178186540637719 Jun 11:36:46	1PASS	0.8910.891
EBIAlphaFoldTest.checkImportPAEToStructureEBIAlphaFoldTest.checkImportPAEToStructure	178186540844019 Jun 11:36:48	1PASS	0.0680.068
EBIAlphaFoldTest.checkPAEimportEBIAlphaFoldTest.checkPAEimport	178186541042019 Jun 11:36:50	1PASS	0.0580.058
EBIAlphaFoldTest.checkImportPAEToStructureEBIAlphaFoldTest.checkImportPAEToStructure	178186540636719 Jun 11:36:46	1PASS	0.0090.009
EBIAlphaFoldTest.checkImportPAEToStructureEBIAlphaFoldTest.checkImportPAEToStructure	178186540726819 Jun 11:36:47	1PASS	0.5670.567
EBIAlphaFoldTest.checkPAEimportEBIAlphaFoldTest.checkPAEimport	178186540850919 Jun 11:36:48	1PASS	0.0130.013
EBIAlphaFoldTest.checkImportPAEForStructureEBIAlphaFoldTest.checkImportPAEForStructure	178186540153919 Jun 11:36:41	1PASS	1.921.92
EBIAlphaFoldTest.checkImportPAEForStructureEBIAlphaFoldTest.checkImportPAEForStructure	178186539856819 Jun 11:36:38	1PASS	0.4120.412
EBIAlphaFoldTest.checkPAEimportEBIAlphaFoldTest.checkPAEimport	178186540985819 Jun 11:36:49	1PASS	0.5610.561
EBIAlphaFoldTest.checkPAEimportEBIAlphaFoldTest.checkPAEimport	178186540928419 Jun 11:36:49	1PASS	0.5720.572

Coverage Report

Class EBIAlphaFoldTest