Class org.broadinstitute.hellbender.tools.GetSampleNameIntegrationTest
Tests
| Test |
Duration |
Result |
| testBasicUsage |
0.092s |
passed |
| testMultiSampleBam |
0.104s |
passed |
| testUrlEncoding |
0.088s |
passed |
Standard error
15:01:32.007 INFO GetSampleName - ------------------------------------------------------------
15:01:32.008 INFO GetSampleName - The Genome Analysis Toolkit (GATK) v4.6.2.0-6-g93cf621-SNAPSHOT
15:01:32.008 INFO GetSampleName - For support and documentation go to https://software.broadinstitute.org/gatk/
15:01:32.008 INFO GetSampleName - Executing as root@07a40c7a9995 on Linux v6.11.0-1014-azure amd64
15:01:32.008 INFO GetSampleName - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
15:01:32.008 INFO GetSampleName - Start Date/Time: May 27, 2025 at 3:01:32 PM GMT
15:01:32.008 INFO GetSampleName - ------------------------------------------------------------
15:01:32.008 INFO GetSampleName - ------------------------------------------------------------
15:01:32.008 INFO GetSampleName - HTSJDK Version: test_cram_wiring-SNAPSHOT
15:01:32.008 INFO GetSampleName - Picard Version: 3.4.0
15:01:32.008 INFO GetSampleName - Built for Spark Version: 3.5.0
15:01:32.008 INFO GetSampleName - HTSJDK Defaults.COMPRESSION_LEVEL : 2
15:01:32.008 INFO GetSampleName - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
15:01:32.008 INFO GetSampleName - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
15:01:32.008 INFO GetSampleName - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
15:01:32.008 INFO GetSampleName - Deflater: IntelDeflater
15:01:32.008 INFO GetSampleName - Inflater: IntelInflater
15:01:32.008 INFO GetSampleName - GCS max retries/reopens: 20
15:01:32.008 INFO GetSampleName - Requester pays: disabled
15:01:32.008 INFO GetSampleName - Initializing engine
15:01:32.009 INFO GetSampleName - Done initializing engine
15:01:32.010 INFO ProgressMeter - Starting traversal
15:01:32.010 INFO ProgressMeter - Current Locus Elapsed Minutes Records Processed Records/Minute
15:01:32.010 INFO ProgressMeter - unmapped 0.0 0 NaN
15:01:32.010 INFO ProgressMeter - Traversal complete. Processed 0 total records in 0.0 minutes.
15:01:32.010 INFO GetSampleName - Shutting down engine
[May 27, 2025 at 3:01:32 PM GMT] org.broadinstitute.hellbender.tools.GetSampleName done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=750780416
[May 27, 2025 at 3:01:32 PM GMT] org.broadinstitute.hellbender.tools.GetSampleName done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=750780416
15:01:32.200 INFO GetSampleName - ------------------------------------------------------------
15:01:32.200 INFO GetSampleName - The Genome Analysis Toolkit (GATK) v4.6.2.0-6-g93cf621-SNAPSHOT
15:01:32.200 INFO GetSampleName - For support and documentation go to https://software.broadinstitute.org/gatk/
15:01:32.200 INFO GetSampleName - Executing as root@07a40c7a9995 on Linux v6.11.0-1014-azure amd64
15:01:32.200 INFO GetSampleName - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
15:01:32.200 INFO GetSampleName - Start Date/Time: May 27, 2025 at 3:01:32 PM GMT
15:01:32.200 INFO GetSampleName - ------------------------------------------------------------
15:01:32.201 INFO GetSampleName - ------------------------------------------------------------
15:01:32.201 INFO GetSampleName - HTSJDK Version: test_cram_wiring-SNAPSHOT
15:01:32.201 INFO GetSampleName - Picard Version: 3.4.0
15:01:32.201 INFO GetSampleName - Built for Spark Version: 3.5.0
15:01:32.201 INFO GetSampleName - HTSJDK Defaults.COMPRESSION_LEVEL : 2
15:01:32.201 INFO GetSampleName - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
15:01:32.201 INFO GetSampleName - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
15:01:32.201 INFO GetSampleName - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
15:01:32.201 INFO GetSampleName - Deflater: IntelDeflater
15:01:32.201 INFO GetSampleName - Inflater: IntelInflater
15:01:32.201 INFO GetSampleName - GCS max retries/reopens: 20
15:01:32.201 INFO GetSampleName - Requester pays: disabled
15:01:32.202 INFO GetSampleName - Initializing engine
15:01:32.202 INFO GetSampleName - Done initializing engine
15:01:32.202 INFO ProgressMeter - Starting traversal
15:01:32.203 INFO ProgressMeter - Current Locus Elapsed Minutes Records Processed Records/Minute
15:01:32.203 INFO ProgressMeter - unmapped 0.0 0 NaN
15:01:32.203 INFO ProgressMeter - Traversal complete. Processed 0 total records in 0.0 minutes.
15:01:32.203 INFO GetSampleName - Shutting down engine
[May 27, 2025 at 3:01:32 PM GMT] org.broadinstitute.hellbender.tools.GetSampleName done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=750780416