Class org.broadinstitute.hellbender.utils.spark.SparkUtilsUnitTest
|
100%
successful |
Tests
| Test | Duration | Result |
|---|---|---|
| testConvertHeaderlessHadoopBamShardToBam | 0.004s | passed |
| testInvalidSort | 1.342s | passed |
| testPathExists | 1.837s | passed |
| testPutReadsWithSameNameInSamePartition[0](1, 1, 2, [I@4bc73960) | 0.610s | passed |
| testPutReadsWithSameNameInSamePartition[10](20, 7, 5, [I@14b22a7d) | 0.062s | passed |
| testPutReadsWithSameNameInSamePartition[1](2, 2, 2, [I@7e4c250a) | 0.088s | passed |
| testPutReadsWithSameNameInSamePartition[2](3, 2, 2, [I@2da791c1) | 0.073s | passed |
| testPutReadsWithSameNameInSamePartition[3](3, 3, 2, [I@7389fff4) | 0.072s | passed |
| testPutReadsWithSameNameInSamePartition[4](6, 2, 2, [I@4c368699) | 0.064s | passed |
| testPutReadsWithSameNameInSamePartition[5](6, 3, 2, [I@593f4d19) | 0.056s | passed |
| testPutReadsWithSameNameInSamePartition[6](6, 4, 2, [I@19dacb7b) | 0.056s | passed |
| testPutReadsWithSameNameInSamePartition[7](2, 2, 3, [I@2fa2bb18) | 0.044s | passed |
| testPutReadsWithSameNameInSamePartition[8](3, 2, 10, [I@48a56139) | 0.043s | passed |
| testPutReadsWithSameNameInSamePartition[9](6, 4, 3, [I@4737b86c) | 0.045s | passed |
| testReadsMustBeQueryGroupedToFixPartitions | 0.002s | passed |
| testReadsPairsSpanningMultiplePartitions | 0.492s | passed |
| testSortCoordinateSortMatchesHtsjdk | 0.540s | passed |
| testSortQuerynameFixesPartitionBoundaries | 0.261s | passed |
| testSortQuerynameSortMatchesHtsjdk | 0.561s | passed |
| testSortUsingElementsAsKeys | 0.061s | passed |
Standard error
18:59:05.734 WARN NativeCodeLoader - Unable to load native-hadoop library for your platform... using builtin-java classes where applicable 18:59:07.312 WARN MetricsConfig - Cannot locate configuration: tried hadoop-metrics2-namenode.properties,hadoop-metrics2.properties 18:59:07.429 WARN AuthenticationFilter - Unable to initialize FileSignerSecretProvider, falling back to use random secrets. Reason: Could not read signature secret file: /home/runner/hadoop-http-auth-signature-secret 18:59:07.432 WARN HttpRequestLog - Jetty request log can only be enabled using Log4j 18:59:07.497 WARN AuthenticationFilter - Unable to initialize FileSignerSecretProvider, falling back to use random secrets. Reason: Could not read signature secret file: /home/runner/hadoop-http-auth-signature-secret 18:59:07.833 WARN MetricsLoggerTask - Metrics logging will not be async since the logger is not log4j 18:59:07.909 WARN AuthenticationFilter - Unable to initialize FileSignerSecretProvider, falling back to use random secrets. Reason: Could not read signature secret file: /home/runner/hadoop-http-auth-signature-secret 18:59:07.910 WARN HttpRequestLog - Jetty request log can only be enabled using Log4j 18:59:08.017 WARN DatanodeHttpServer - Got null for restCsrfPreventionFilter - will not do any filtering. 18:59:08.059 WARN MetricsLoggerTask - Metrics logging will not be async since the logger is not log4j 18:59:08.255 WARN FsDatasetImpl - dfsUsed file missing in /tmp/minicluster_storage11745238513607954934/data/data2/current/BP-1783853053-10.1.0.176-1747681147132/current, will proceed with Du for space computation calculation, 18:59:08.256 WARN FsDatasetImpl - dfsUsed file missing in /tmp/minicluster_storage11745238513607954934/data/data1/current/BP-1783853053-10.1.0.176-1747681147132/current, will proceed with Du for space computation calculation, 18:59:08.300 WARN DirectoryScanner - dfs.datanode.directoryscan.throttle.limit.ms.per.sec set to value above 1000 ms/sec. Assuming default value of -1 18:59:08.493 WARN IncrementalBlockReportManager - IncrementalBlockReportManager interrupted 18:59:08.493 WARN DataNode - Ending block pool service for: Block pool BP-1783853053-10.1.0.176-1747681147132 (Datanode Uuid 7721faf9-62d7-4059-9761-7264a09f3b50) service to localhost/127.0.0.1:39813 18:59:08.493 WARN IncrementalBlockReportManager - IncrementalBlockReportManager interrupted 18:59:08.494 ERROR DataNode - Command processor encountered interrupt and exit. 18:59:08.494 WARN DataNode - Ending command processor service for: Thread[Command processor,5,main] 18:59:08.495 WARN CachingGetSpaceUsed - Thread Interrupted waiting to refresh disk information: sleep interrupted 18:59:08.495 WARN CachingGetSpaceUsed - Thread Interrupted waiting to refresh disk information: sleep interrupted