Class org.broadinstitute.hellbender.tools.GetSampleNameIntegrationTest
Tests
| Test |
Duration |
Result |
| testBasicUsage |
0.141s |
passed |
| testMultiSampleBam |
0.162s |
passed |
| testUrlEncoding |
0.120s |
passed |
Standard error
18:20:20.868 INFO GetSampleName - ------------------------------------------------------------
18:20:20.868 INFO GetSampleName - The Genome Analysis Toolkit (GATK) v4.6.2.0-6-g06789f4-SNAPSHOT
18:20:20.868 INFO GetSampleName - For support and documentation go to https://software.broadinstitute.org/gatk/
18:20:20.868 INFO GetSampleName - Executing as root@9bb9f17fa524 on Linux v6.11.0-1014-azure amd64
18:20:20.868 INFO GetSampleName - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
18:20:20.868 INFO GetSampleName - Start Date/Time: May 27, 2025 at 6:20:20 PM GMT
18:20:20.868 INFO GetSampleName - ------------------------------------------------------------
18:20:20.868 INFO GetSampleName - ------------------------------------------------------------
18:20:20.868 INFO GetSampleName - HTSJDK Version: test_cram_wiring-SNAPSHOT
18:20:20.868 INFO GetSampleName - Picard Version: 3.4.0
18:20:20.868 INFO GetSampleName - Built for Spark Version: 3.5.0
18:20:20.868 INFO GetSampleName - HTSJDK Defaults.COMPRESSION_LEVEL : 2
18:20:20.868 INFO GetSampleName - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
18:20:20.868 INFO GetSampleName - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
18:20:20.868 INFO GetSampleName - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
18:20:20.868 INFO GetSampleName - Deflater: IntelDeflater
18:20:20.868 INFO GetSampleName - Inflater: IntelInflater
18:20:20.868 INFO GetSampleName - GCS max retries/reopens: 20
18:20:20.869 INFO GetSampleName - Requester pays: disabled
18:20:20.869 INFO GetSampleName - Initializing engine
18:20:20.869 INFO GetSampleName - Done initializing engine
18:20:20.870 INFO ProgressMeter - Starting traversal
18:20:20.870 INFO ProgressMeter - Current Locus Elapsed Minutes Records Processed Records/Minute
18:20:20.870 INFO ProgressMeter - unmapped 0.0 0 NaN
18:20:20.870 INFO ProgressMeter - Traversal complete. Processed 0 total records in 0.0 minutes.
18:20:20.871 INFO GetSampleName - Shutting down engine
[May 27, 2025 at 6:20:20 PM GMT] org.broadinstitute.hellbender.tools.GetSampleName done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
[May 27, 2025 at 6:20:21 PM GMT] org.broadinstitute.hellbender.tools.GetSampleName done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
18:20:21.151 INFO GetSampleName - ------------------------------------------------------------
18:20:21.151 INFO GetSampleName - The Genome Analysis Toolkit (GATK) v4.6.2.0-6-g06789f4-SNAPSHOT
18:20:21.151 INFO GetSampleName - For support and documentation go to https://software.broadinstitute.org/gatk/
18:20:21.151 INFO GetSampleName - Executing as root@9bb9f17fa524 on Linux v6.11.0-1014-azure amd64
18:20:21.151 INFO GetSampleName - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
18:20:21.151 INFO GetSampleName - Start Date/Time: May 27, 2025 at 6:20:21 PM GMT
18:20:21.152 INFO GetSampleName - ------------------------------------------------------------
18:20:21.152 INFO GetSampleName - ------------------------------------------------------------
18:20:21.152 INFO GetSampleName - HTSJDK Version: test_cram_wiring-SNAPSHOT
18:20:21.152 INFO GetSampleName - Picard Version: 3.4.0
18:20:21.152 INFO GetSampleName - Built for Spark Version: 3.5.0
18:20:21.152 INFO GetSampleName - HTSJDK Defaults.COMPRESSION_LEVEL : 2
18:20:21.152 INFO GetSampleName - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
18:20:21.152 INFO GetSampleName - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
18:20:21.152 INFO GetSampleName - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
18:20:21.152 INFO GetSampleName - Deflater: IntelDeflater
18:20:21.152 INFO GetSampleName - Inflater: IntelInflater
18:20:21.153 INFO GetSampleName - GCS max retries/reopens: 20
18:20:21.153 INFO GetSampleName - Requester pays: disabled
18:20:21.153 INFO GetSampleName - Initializing engine
18:20:21.154 INFO GetSampleName - Done initializing engine
18:20:21.154 INFO ProgressMeter - Starting traversal
18:20:21.154 INFO ProgressMeter - Current Locus Elapsed Minutes Records Processed Records/Minute
18:20:21.154 INFO ProgressMeter - unmapped 0.0 0 NaN
18:20:21.154 INFO ProgressMeter - Traversal complete. Processed 0 total records in 0.0 minutes.
18:20:21.154 INFO GetSampleName - Shutting down engine
[May 27, 2025 at 6:20:21 PM GMT] org.broadinstitute.hellbender.tools.GetSampleName done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000