Class org.broadinstitute.hellbender.utils.spark.SparkUtilsUnitTest
|
100%
successful |
Tests
| Test | Duration | Result |
|---|---|---|
| testConvertHeaderlessHadoopBamShardToBam | 0.004s | passed |
| testInvalidSort | 1.262s | passed |
| testPathExists | 1.698s | passed |
| testPutReadsWithSameNameInSamePartition[0](1, 1, 2, [I@42b921e1) | 0.523s | passed |
| testPutReadsWithSameNameInSamePartition[10](20, 7, 5, [I@331be151) | 0.051s | passed |
| testPutReadsWithSameNameInSamePartition[1](2, 2, 2, [I@db1e6cb) | 0.043s | passed |
| testPutReadsWithSameNameInSamePartition[2](3, 2, 2, [I@6be7f87c) | 0.037s | passed |
| testPutReadsWithSameNameInSamePartition[3](3, 3, 2, [I@3ff5243f) | 0.047s | passed |
| testPutReadsWithSameNameInSamePartition[4](6, 2, 2, [I@3c539c60) | 0.036s | passed |
| testPutReadsWithSameNameInSamePartition[5](6, 3, 2, [I@2c98489b) | 0.038s | passed |
| testPutReadsWithSameNameInSamePartition[6](6, 4, 2, [I@2875d486) | 0.041s | passed |
| testPutReadsWithSameNameInSamePartition[7](2, 2, 3, [I@3cb5b795) | 0.030s | passed |
| testPutReadsWithSameNameInSamePartition[8](3, 2, 10, [I@30b1567) | 0.032s | passed |
| testPutReadsWithSameNameInSamePartition[9](6, 4, 3, [I@34d1177e) | 0.041s | passed |
| testReadsMustBeQueryGroupedToFixPartitions | 0.001s | passed |
| testReadsPairsSpanningMultiplePartitions | 0.328s | passed |
| testSortCoordinateSortMatchesHtsjdk | 0.351s | passed |
| testSortQuerynameFixesPartitionBoundaries | 0.244s | passed |
| testSortQuerynameSortMatchesHtsjdk | 0.415s | passed |
| testSortUsingElementsAsKeys | 0.057s | passed |
Standard error
17:50:10.413 WARN NativeCodeLoader - Unable to load native-hadoop library for your platform... using builtin-java classes where applicable 17:50:11.849 WARN MetricsConfig - Cannot locate configuration: tried hadoop-metrics2-namenode.properties,hadoop-metrics2.properties 17:50:11.970 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 17:50:11.974 WARN HttpRequestLog - Jetty request log can only be enabled using Log4j 17:50:12.037 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 17:50:12.367 WARN MetricsLoggerTask - Metrics logging will not be async since the logger is not log4j 17:50:12.446 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 17:50:12.446 WARN HttpRequestLog - Jetty request log can only be enabled using Log4j 17:50:12.529 WARN DatanodeHttpServer - Got null for restCsrfPreventionFilter - will not do any filtering. 17:50:12.566 WARN MetricsLoggerTask - Metrics logging will not be async since the logger is not log4j 17:50:12.791 WARN FsDatasetImpl - dfsUsed file missing in /tmp/minicluster_storage4789854754098267725/data/data1/current/BP-1617500477-10.1.0.252-1761587411655/current, will proceed with Du for space computation calculation, 17:50:12.791 WARN FsDatasetImpl - dfsUsed file missing in /tmp/minicluster_storage4789854754098267725/data/data2/current/BP-1617500477-10.1.0.252-1761587411655/current, will proceed with Du for space computation calculation, 17:50:12.812 WARN DirectoryScanner - dfs.datanode.directoryscan.throttle.limit.ms.per.sec set to value above 1000 ms/sec. Assuming default value of -1 17:50:12.959 WARN IncrementalBlockReportManager - IncrementalBlockReportManager interrupted 17:50:12.960 WARN DataNode - Ending block pool service for: Block pool BP-1617500477-10.1.0.252-1761587411655 (Datanode Uuid c205ea28-fa4e-4f37-a2d3-ef9e42d59ff8) service to localhost/127.0.0.1:40603 17:50:12.959 ERROR DataNode - Command processor encountered interrupt and exit. 17:50:12.960 WARN DataNode - Ending command processor service for: Thread[Command processor,5,main] 17:50:12.960 WARN IncrementalBlockReportManager - IncrementalBlockReportManager interrupted 17:50:12.961 WARN CachingGetSpaceUsed - Thread Interrupted waiting to refresh disk information: sleep interrupted 17:50:12.961 WARN CachingGetSpaceUsed - Thread Interrupted waiting to refresh disk information: sleep interrupted