Class org.broadinstitute.hellbender.tools.GetSampleNameIntegrationTest
Tests
| Test |
Duration |
Result |
| testBasicUsage |
0.095s |
passed |
| testMultiSampleBam |
0.107s |
passed |
| testUrlEncoding |
0.095s |
passed |
Standard error
16:39:10.508 INFO GetSampleName - ------------------------------------------------------------
16:39:10.508 INFO GetSampleName - The Genome Analysis Toolkit (GATK) v4.6.2.0-6-g113e5d7-SNAPSHOT
16:39:10.508 INFO GetSampleName - For support and documentation go to https://software.broadinstitute.org/gatk/
16:39:10.508 INFO GetSampleName - Executing as root@1c4c36ffc4f6 on Linux v6.11.0-1014-azure amd64
16:39:10.508 INFO GetSampleName - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
16:39:10.508 INFO GetSampleName - Start Date/Time: May 27, 2025 at 4:39:10 PM GMT
16:39:10.508 INFO GetSampleName - ------------------------------------------------------------
16:39:10.508 INFO GetSampleName - ------------------------------------------------------------
16:39:10.508 INFO GetSampleName - HTSJDK Version: test_cram_wiring-SNAPSHOT
16:39:10.508 INFO GetSampleName - Picard Version: 3.4.0
16:39:10.508 INFO GetSampleName - Built for Spark Version: 3.5.0
16:39:10.508 INFO GetSampleName - HTSJDK Defaults.COMPRESSION_LEVEL : 2
16:39:10.508 INFO GetSampleName - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
16:39:10.509 INFO GetSampleName - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
16:39:10.509 INFO GetSampleName - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
16:39:10.509 INFO GetSampleName - Deflater: IntelDeflater
16:39:10.509 INFO GetSampleName - Inflater: IntelInflater
16:39:10.509 INFO GetSampleName - GCS max retries/reopens: 20
16:39:10.509 INFO GetSampleName - Requester pays: disabled
16:39:10.509 INFO GetSampleName - Initializing engine
16:39:10.509 INFO GetSampleName - Done initializing engine
16:39:10.510 INFO ProgressMeter - Starting traversal
16:39:10.510 INFO ProgressMeter - Current Locus Elapsed Minutes Records Processed Records/Minute
16:39:10.510 INFO ProgressMeter - unmapped 0.0 0 NaN
16:39:10.510 INFO ProgressMeter - Traversal complete. Processed 0 total records in 0.0 minutes.
16:39:10.510 INFO GetSampleName - Shutting down engine
[May 27, 2025 at 4:39:10 PM GMT] org.broadinstitute.hellbender.tools.GetSampleName done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 4:39:10 PM GMT] org.broadinstitute.hellbender.tools.GetSampleName done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
16:39:10.710 INFO GetSampleName - ------------------------------------------------------------
16:39:10.710 INFO GetSampleName - The Genome Analysis Toolkit (GATK) v4.6.2.0-6-g113e5d7-SNAPSHOT
16:39:10.710 INFO GetSampleName - For support and documentation go to https://software.broadinstitute.org/gatk/
16:39:10.710 INFO GetSampleName - Executing as root@1c4c36ffc4f6 on Linux v6.11.0-1014-azure amd64
16:39:10.710 INFO GetSampleName - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
16:39:10.710 INFO GetSampleName - Start Date/Time: May 27, 2025 at 4:39:10 PM GMT
16:39:10.710 INFO GetSampleName - ------------------------------------------------------------
16:39:10.710 INFO GetSampleName - ------------------------------------------------------------
16:39:10.710 INFO GetSampleName - HTSJDK Version: test_cram_wiring-SNAPSHOT
16:39:10.710 INFO GetSampleName - Picard Version: 3.4.0
16:39:10.710 INFO GetSampleName - Built for Spark Version: 3.5.0
16:39:10.710 INFO GetSampleName - HTSJDK Defaults.COMPRESSION_LEVEL : 2
16:39:10.710 INFO GetSampleName - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
16:39:10.711 INFO GetSampleName - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
16:39:10.711 INFO GetSampleName - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
16:39:10.711 INFO GetSampleName - Deflater: IntelDeflater
16:39:10.711 INFO GetSampleName - Inflater: IntelInflater
16:39:10.711 INFO GetSampleName - GCS max retries/reopens: 20
16:39:10.711 INFO GetSampleName - Requester pays: disabled
16:39:10.711 INFO GetSampleName - Initializing engine
16:39:10.712 INFO GetSampleName - Done initializing engine
16:39:10.712 INFO ProgressMeter - Starting traversal
16:39:10.712 INFO ProgressMeter - Current Locus Elapsed Minutes Records Processed Records/Minute
16:39:10.712 INFO ProgressMeter - unmapped 0.0 0 NaN
16:39:10.712 INFO ProgressMeter - Traversal complete. Processed 0 total records in 0.0 minutes.
16:39:10.712 INFO GetSampleName - Shutting down engine
[May 27, 2025 at 4:39:10 PM GMT] org.broadinstitute.hellbender.tools.GetSampleName done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000