Class org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest

all > org.broadinstitute.hellbender.engine > LocusWalkerByIntervalUnitTest
13

tests
0

failures
0

ignored
0.282s

duration
100%

successful

Tests

Test Duration Result
testOverlappingBasesCoverageInformation[0]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@4cbb217e, [I@2aae4e81) 0.033s passed
testOverlappingBasesCoverageInformation[10]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@2d29b8d3, [I@2c34fb51) 0.026s passed
testOverlappingBasesCoverageInformation[11]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@18bb7eca, [I@6bac4719) 0.021s passed
testOverlappingBasesCoverageInformation[12]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@d57624a, [I@15cdc117) 0.019s passed
testOverlappingBasesCoverageInformation[1]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@73e9d4d0, [I@3324270d) 0.020s passed
testOverlappingBasesCoverageInformation[2]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@42eeb996, [I@138bd003) 0.019s passed
testOverlappingBasesCoverageInformation[3]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@64e5d7e4, [I@604125bd) 0.020s passed
testOverlappingBasesCoverageInformation[4]([20:1000-2000, 20:2001-3000], [Lhtsjdk.samtools.util.Locatable;@296c6cc1, [I@196ca821) 0.021s passed
testOverlappingBasesCoverageInformation[5]([20:1000-2000, 20:3001-4000], [Lhtsjdk.samtools.util.Locatable;@a83c657, [I@51729c2b) 0.020s passed
testOverlappingBasesCoverageInformation[6]([20:1000-2000, 21:3001-4000], [Lhtsjdk.samtools.util.Locatable;@49648d97, [I@1d691240) 0.020s passed
testOverlappingBasesCoverageInformation[7]([20:1000-2000, 20:3001-4000], [Lhtsjdk.samtools.util.Locatable;@fec48ec, [I@be73bbd) 0.024s passed
testOverlappingBasesCoverageInformation[8]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@2625c1cc, [I@3a6dd085) 0.019s passed
testOverlappingBasesCoverageInformation[9]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@675d209c, [I@aebd00f) 0.020s passed

Standard error

19:01:56.525 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.525 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-5-g0192957-SNAPSHOT
19:01:56.525 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:01:56.525 INFO  TestTransformedLocusWalker - Executing as root@41e59f58627b on Linux v6.11.0-1014-azure amd64
19:01:56.525 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
19:01:56.525 INFO  TestTransformedLocusWalker - Start Date/Time: May 19, 2025 at 7:01:56 PM GMT
19:01:56.525 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.525 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.525 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:01:56.525 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:01:56.525 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:01:56.526 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:01:56.526 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
19:01:56.526 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
19:01:56.526 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
19:01:56.526 INFO  TestTransformedLocusWalker - Requester pays: disabled
19:01:56.526 INFO  TestTransformedLocusWalker - Initializing engine
19:01:56.528 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
19:01:56.528 INFO  TestTransformedLocusWalker - Done initializing engine
19:01:56.528 INFO  ProgressMeter - Starting traversal
19:01:56.528 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
19:01:56.542 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
19:01:56.542 INFO  ProgressMeter -              20:1999              0.0                  1001        4290000.0
19:01:56.542 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
19:01:56.542 INFO  TestTransformedLocusWalker - Shutting down engine
[May 19, 2025 at 7:01:56 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1115684864
19:01:56.558 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.558 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-5-g0192957-SNAPSHOT
19:01:56.558 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:01:56.558 INFO  TestTransformedLocusWalker - Executing as root@41e59f58627b on Linux v6.11.0-1014-azure amd64
19:01:56.558 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
19:01:56.558 INFO  TestTransformedLocusWalker - Start Date/Time: May 19, 2025 at 7:01:56 PM GMT
19:01:56.558 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.558 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.558 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:01:56.558 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:01:56.558 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:01:56.558 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:01:56.558 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
19:01:56.558 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
19:01:56.559 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
19:01:56.559 INFO  TestTransformedLocusWalker - Requester pays: disabled
19:01:56.559 INFO  TestTransformedLocusWalker - Initializing engine
19:01:56.560 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
19:01:56.560 INFO  TestTransformedLocusWalker - Done initializing engine
19:01:56.560 INFO  ProgressMeter - Starting traversal
19:01:56.560 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
19:01:56.562 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
19:01:56.563 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
19:01:56.563 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
19:01:56.563 INFO  TestTransformedLocusWalker - Shutting down engine
[May 19, 2025 at 7:01:56 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1115684864
19:01:56.577 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.577 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-5-g0192957-SNAPSHOT
19:01:56.578 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:01:56.578 INFO  TestTransformedLocusWalker - Executing as root@41e59f58627b on Linux v6.11.0-1014-azure amd64
19:01:56.578 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
19:01:56.578 INFO  TestTransformedLocusWalker - Start Date/Time: May 19, 2025 at 7:01:56 PM GMT
19:01:56.578 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.578 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.578 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:01:56.578 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:01:56.578 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:01:56.578 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:01:56.578 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
19:01:56.578 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
19:01:56.578 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
19:01:56.578 INFO  TestTransformedLocusWalker - Requester pays: disabled
19:01:56.578 INFO  TestTransformedLocusWalker - Initializing engine
19:01:56.580 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
19:01:56.580 INFO  TestTransformedLocusWalker - Done initializing engine
19:01:56.580 INFO  ProgressMeter - Starting traversal
19:01:56.580 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
19:01:56.581 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
19:01:56.582 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
19:01:56.582 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
19:01:56.582 INFO  TestTransformedLocusWalker - Shutting down engine
[May 19, 2025 at 7:01:56 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1115684864
19:01:56.596 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.596 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-5-g0192957-SNAPSHOT
19:01:56.596 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:01:56.596 INFO  TestTransformedLocusWalker - Executing as root@41e59f58627b on Linux v6.11.0-1014-azure amd64
19:01:56.597 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
19:01:56.597 INFO  TestTransformedLocusWalker - Start Date/Time: May 19, 2025 at 7:01:56 PM GMT
19:01:56.597 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.597 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.597 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:01:56.597 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:01:56.597 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:01:56.597 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:01:56.597 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
19:01:56.597 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
19:01:56.597 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
19:01:56.597 INFO  TestTransformedLocusWalker - Requester pays: disabled
19:01:56.597 INFO  TestTransformedLocusWalker - Initializing engine
19:01:56.598 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
19:01:56.599 INFO  TestTransformedLocusWalker - Done initializing engine
19:01:56.599 INFO  ProgressMeter - Starting traversal
19:01:56.599 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
19:01:56.601 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
19:01:56.601 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
19:01:56.601 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
19:01:56.601 INFO  TestTransformedLocusWalker - Shutting down engine
[May 19, 2025 at 7:01:56 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1115684864
19:01:56.616 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.616 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-5-g0192957-SNAPSHOT
19:01:56.616 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:01:56.616 INFO  TestTransformedLocusWalker - Executing as root@41e59f58627b on Linux v6.11.0-1014-azure amd64
19:01:56.616 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
19:01:56.617 INFO  TestTransformedLocusWalker - Start Date/Time: May 19, 2025 at 7:01:56 PM GMT
19:01:56.617 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.617 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.617 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:01:56.617 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:01:56.617 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:01:56.617 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:01:56.617 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
19:01:56.617 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
19:01:56.617 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
19:01:56.617 INFO  TestTransformedLocusWalker - Requester pays: disabled
19:01:56.617 INFO  TestTransformedLocusWalker - Initializing engine
19:01:56.619 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
19:01:56.619 INFO  TestTransformedLocusWalker - Done initializing engine
19:01:56.619 INFO  ProgressMeter - Starting traversal
19:01:56.619 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
19:01:56.622 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
19:01:56.622 INFO  ProgressMeter -              20:2999              0.0                  2001       40020000.0
19:01:56.622 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
19:01:56.622 INFO  TestTransformedLocusWalker - Shutting down engine
[May 19, 2025 at 7:01:56 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1115684864
19:01:56.638 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.638 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-5-g0192957-SNAPSHOT
19:01:56.638 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:01:56.638 INFO  TestTransformedLocusWalker - Executing as root@41e59f58627b on Linux v6.11.0-1014-azure amd64
19:01:56.638 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
19:01:56.638 INFO  TestTransformedLocusWalker - Start Date/Time: May 19, 2025 at 7:01:56 PM GMT
19:01:56.638 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.638 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.638 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:01:56.638 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:01:56.638 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:01:56.638 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:01:56.638 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
19:01:56.638 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
19:01:56.638 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
19:01:56.638 INFO  TestTransformedLocusWalker - Requester pays: disabled
19:01:56.638 INFO  TestTransformedLocusWalker - Initializing engine
19:01:56.640 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
19:01:56.640 INFO  TestTransformedLocusWalker - Done initializing engine
19:01:56.640 INFO  ProgressMeter - Starting traversal
19:01:56.640 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
19:01:56.643 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
19:01:56.643 INFO  ProgressMeter -              20:3999              0.0                  2001       40020000.0
19:01:56.643 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
19:01:56.643 INFO  TestTransformedLocusWalker - Shutting down engine
[May 19, 2025 at 7:01:56 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1115684864
19:01:56.658 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.658 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-5-g0192957-SNAPSHOT
19:01:56.658 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:01:56.658 INFO  TestTransformedLocusWalker - Executing as root@41e59f58627b on Linux v6.11.0-1014-azure amd64
19:01:56.658 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
19:01:56.658 INFO  TestTransformedLocusWalker - Start Date/Time: May 19, 2025 at 7:01:56 PM GMT
19:01:56.658 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.658 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.658 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:01:56.658 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:01:56.658 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:01:56.658 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:01:56.658 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
19:01:56.658 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
19:01:56.658 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
19:01:56.659 INFO  TestTransformedLocusWalker - Requester pays: disabled
19:01:56.659 INFO  TestTransformedLocusWalker - Initializing engine
19:01:56.660 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
19:01:56.660 INFO  TestTransformedLocusWalker - Done initializing engine
19:01:56.660 INFO  ProgressMeter - Starting traversal
19:01:56.660 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
19:01:56.663 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
19:01:56.663 INFO  ProgressMeter -              21:3999              0.0                  2001       40020000.0
19:01:56.663 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
19:01:56.663 INFO  TestTransformedLocusWalker - Shutting down engine
[May 19, 2025 at 7:01:56 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1115684864
19:01:56.678 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.678 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-5-g0192957-SNAPSHOT
19:01:56.678 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:01:56.678 INFO  TestTransformedLocusWalker - Executing as root@41e59f58627b on Linux v6.11.0-1014-azure amd64
19:01:56.678 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
19:01:56.678 INFO  TestTransformedLocusWalker - Start Date/Time: May 19, 2025 at 7:01:56 PM GMT
19:01:56.678 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.678 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.678 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:01:56.678 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:01:56.678 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:01:56.678 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:01:56.678 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
19:01:56.678 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
19:01:56.678 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
19:01:56.678 INFO  TestTransformedLocusWalker - Requester pays: disabled
19:01:56.678 INFO  TestTransformedLocusWalker - Initializing engine
19:01:56.680 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
19:01:56.680 INFO  TestTransformedLocusWalker - Done initializing engine
19:01:56.680 INFO  ProgressMeter - Starting traversal
19:01:56.680 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
19:01:56.687 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
19:01:56.687 INFO  ProgressMeter -              20:3999              0.0                  2001       17151428.6
19:01:56.688 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
19:01:56.688 INFO  TestTransformedLocusWalker - Shutting down engine
[May 19, 2025 at 7:01:56 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1115684864
19:01:56.702 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.702 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-5-g0192957-SNAPSHOT
19:01:56.702 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:01:56.702 INFO  TestTransformedLocusWalker - Executing as root@41e59f58627b on Linux v6.11.0-1014-azure amd64
19:01:56.702 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
19:01:56.702 INFO  TestTransformedLocusWalker - Start Date/Time: May 19, 2025 at 7:01:56 PM GMT
19:01:56.702 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.702 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.702 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:01:56.702 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:01:56.702 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:01:56.702 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:01:56.702 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
19:01:56.702 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
19:01:56.702 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
19:01:56.702 INFO  TestTransformedLocusWalker - Requester pays: disabled
19:01:56.702 INFO  TestTransformedLocusWalker - Initializing engine
19:01:56.704 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
19:01:56.704 INFO  TestTransformedLocusWalker - Done initializing engine
19:01:56.704 INFO  ProgressMeter - Starting traversal
19:01:56.704 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
19:01:56.706 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
19:01:56.706 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
19:01:56.706 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
19:01:56.706 INFO  TestTransformedLocusWalker - Shutting down engine
[May 19, 2025 at 7:01:56 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1115684864
19:01:56.722 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.722 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-5-g0192957-SNAPSHOT
19:01:56.722 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:01:56.722 INFO  TestTransformedLocusWalker - Executing as root@41e59f58627b on Linux v6.11.0-1014-azure amd64
19:01:56.722 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
19:01:56.722 INFO  TestTransformedLocusWalker - Start Date/Time: May 19, 2025 at 7:01:56 PM GMT
19:01:56.722 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.722 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.722 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:01:56.722 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:01:56.722 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:01:56.722 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:01:56.723 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
19:01:56.723 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
19:01:56.723 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
19:01:56.723 INFO  TestTransformedLocusWalker - Requester pays: disabled
19:01:56.723 INFO  TestTransformedLocusWalker - Initializing engine
19:01:56.724 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
19:01:56.724 INFO  TestTransformedLocusWalker - Done initializing engine
19:01:56.725 INFO  ProgressMeter - Starting traversal
19:01:56.725 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
19:01:56.726 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
19:01:56.727 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
19:01:56.727 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
19:01:56.727 INFO  TestTransformedLocusWalker - Shutting down engine
[May 19, 2025 at 7:01:56 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1115684864
19:01:56.748 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.748 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-5-g0192957-SNAPSHOT
19:01:56.748 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:01:56.748 INFO  TestTransformedLocusWalker - Executing as root@41e59f58627b on Linux v6.11.0-1014-azure amd64
19:01:56.748 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
19:01:56.748 INFO  TestTransformedLocusWalker - Start Date/Time: May 19, 2025 at 7:01:56 PM GMT
19:01:56.748 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.748 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.748 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:01:56.748 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:01:56.748 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:01:56.748 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:01:56.748 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
19:01:56.748 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
19:01:56.748 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
19:01:56.748 INFO  TestTransformedLocusWalker - Requester pays: disabled
19:01:56.748 INFO  TestTransformedLocusWalker - Initializing engine
19:01:56.750 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
19:01:56.750 INFO  TestTransformedLocusWalker - Done initializing engine
19:01:56.750 INFO  ProgressMeter - Starting traversal
19:01:56.750 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
19:01:56.752 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
19:01:56.753 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
19:01:56.753 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
19:01:56.753 INFO  TestTransformedLocusWalker - Shutting down engine
[May 19, 2025 at 7:01:56 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1115684864
19:01:56.768 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.768 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-5-g0192957-SNAPSHOT
19:01:56.768 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:01:56.768 INFO  TestTransformedLocusWalker - Executing as root@41e59f58627b on Linux v6.11.0-1014-azure amd64
19:01:56.768 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
19:01:56.768 INFO  TestTransformedLocusWalker - Start Date/Time: May 19, 2025 at 7:01:56 PM GMT
19:01:56.768 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.768 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.768 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:01:56.768 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:01:56.768 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:01:56.768 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:01:56.768 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
19:01:56.768 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
19:01:56.768 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
19:01:56.768 INFO  TestTransformedLocusWalker - Requester pays: disabled
19:01:56.768 INFO  TestTransformedLocusWalker - Initializing engine
19:01:56.770 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
19:01:56.771 INFO  TestTransformedLocusWalker - Done initializing engine
19:01:56.771 INFO  ProgressMeter - Starting traversal
19:01:56.771 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
19:01:56.773 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
19:01:56.773 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
19:01:56.774 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
19:01:56.774 INFO  TestTransformedLocusWalker - Shutting down engine
[May 19, 2025 at 7:01:56 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1115684864
19:01:56.789 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.789 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-5-g0192957-SNAPSHOT
19:01:56.789 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:01:56.789 INFO  TestTransformedLocusWalker - Executing as root@41e59f58627b on Linux v6.11.0-1014-azure amd64
19:01:56.789 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
19:01:56.789 INFO  TestTransformedLocusWalker - Start Date/Time: May 19, 2025 at 7:01:56 PM GMT
19:01:56.789 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.789 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
19:01:56.789 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:01:56.789 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:01:56.789 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:01:56.789 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:01:56.789 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
19:01:56.789 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
19:01:56.789 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
19:01:56.789 INFO  TestTransformedLocusWalker - Requester pays: disabled
19:01:56.789 INFO  TestTransformedLocusWalker - Initializing engine
19:01:56.791 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
19:01:56.791 INFO  TestTransformedLocusWalker - Done initializing engine
19:01:56.791 INFO  ProgressMeter - Starting traversal
19:01:56.791 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
19:01:56.792 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
19:01:56.792 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
19:01:56.793 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
19:01:56.793 INFO  TestTransformedLocusWalker - Shutting down engine
[May 19, 2025 at 7:01:56 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1115684864