Class org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest

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

tests
0

failures
0

ignored
0.318s

duration
100%

successful

Tests

Test Duration Result
testOverlappingBasesCoverageInformation[0]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@3082b46a, [I@4b2c1cbf) 0.033s passed
testOverlappingBasesCoverageInformation[10]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@4140d677, [I@2c890ee3) 0.026s passed
testOverlappingBasesCoverageInformation[11]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@c634247, [I@414c63f1) 0.026s passed
testOverlappingBasesCoverageInformation[12]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@6a937d6f, [I@2ad3e7e5) 0.026s passed
testOverlappingBasesCoverageInformation[1]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@5e57149f, [I@737fd68) 0.020s passed
testOverlappingBasesCoverageInformation[2]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@53bf7b33, [I@39d06cd9) 0.020s passed
testOverlappingBasesCoverageInformation[3]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@50f71f48, [I@14270715) 0.020s passed
testOverlappingBasesCoverageInformation[4]([20:1000-2000, 20:2001-3000], [Lhtsjdk.samtools.util.Locatable;@24c036b7, [I@2ff35d7) 0.021s passed
testOverlappingBasesCoverageInformation[5]([20:1000-2000, 20:3001-4000], [Lhtsjdk.samtools.util.Locatable;@63792a7a, [I@6911005b) 0.021s passed
testOverlappingBasesCoverageInformation[6]([20:1000-2000, 21:3001-4000], [Lhtsjdk.samtools.util.Locatable;@62af3d4c, [I@ad038f8) 0.027s passed
testOverlappingBasesCoverageInformation[7]([20:1000-2000, 20:3001-4000], [Lhtsjdk.samtools.util.Locatable;@7c1a4a74, [I@46569cab) 0.028s passed
testOverlappingBasesCoverageInformation[8]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@adb1197, [I@58f0d3b6) 0.023s passed
testOverlappingBasesCoverageInformation[9]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@4310d985, [I@61e67cc1) 0.027s passed

Standard error

20:47:49.350 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.350 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-13-g9eb1b78-SNAPSHOT
20:47:49.350 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:47:49.350 INFO  TestTransformedLocusWalker - Executing as root@b6fedaba0a37 on Linux v6.11.0-1018-azure amd64
20:47:49.350 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
20:47:49.350 INFO  TestTransformedLocusWalker - Start Date/Time: July 15, 2025 at 8:47:49 PM GMT
20:47:49.350 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.350 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.350 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:47:49.351 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:47:49.351 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:47:49.351 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:47:49.351 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
20:47:49.351 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
20:47:49.351 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
20:47:49.351 INFO  TestTransformedLocusWalker - Requester pays: disabled
20:47:49.351 INFO  TestTransformedLocusWalker - Initializing engine
20:47:49.353 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
20:47:49.353 INFO  TestTransformedLocusWalker - Done initializing engine
20:47:49.353 INFO  ProgressMeter - Starting traversal
20:47:49.353 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
20:47:49.367 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
20:47:49.367 INFO  ProgressMeter -              20:1999              0.0                  1001        4290000.0
20:47:49.368 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
20:47:49.368 INFO  TestTransformedLocusWalker - Shutting down engine
[July 15, 2025 at 8:47:49 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=799014912
20:47:49.383 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.383 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-13-g9eb1b78-SNAPSHOT
20:47:49.383 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:47:49.384 INFO  TestTransformedLocusWalker - Executing as root@b6fedaba0a37 on Linux v6.11.0-1018-azure amd64
20:47:49.384 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
20:47:49.384 INFO  TestTransformedLocusWalker - Start Date/Time: July 15, 2025 at 8:47:49 PM GMT
20:47:49.384 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.384 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.384 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:47:49.384 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:47:49.384 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:47:49.384 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:47:49.384 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
20:47:49.384 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
20:47:49.384 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
20:47:49.384 INFO  TestTransformedLocusWalker - Requester pays: disabled
20:47:49.384 INFO  TestTransformedLocusWalker - Initializing engine
20:47:49.386 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
20:47:49.386 INFO  TestTransformedLocusWalker - Done initializing engine
20:47:49.386 INFO  ProgressMeter - Starting traversal
20:47:49.386 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
20:47:49.388 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
20:47:49.388 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
20:47:49.389 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
20:47:49.389 INFO  TestTransformedLocusWalker - Shutting down engine
[July 15, 2025 at 8:47:49 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=799014912
20:47:49.404 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.404 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-13-g9eb1b78-SNAPSHOT
20:47:49.404 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:47:49.404 INFO  TestTransformedLocusWalker - Executing as root@b6fedaba0a37 on Linux v6.11.0-1018-azure amd64
20:47:49.404 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
20:47:49.404 INFO  TestTransformedLocusWalker - Start Date/Time: July 15, 2025 at 8:47:49 PM GMT
20:47:49.404 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.404 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.404 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:47:49.405 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:47:49.405 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:47:49.405 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:47:49.405 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
20:47:49.405 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
20:47:49.405 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
20:47:49.405 INFO  TestTransformedLocusWalker - Requester pays: disabled
20:47:49.405 INFO  TestTransformedLocusWalker - Initializing engine
20:47:49.406 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
20:47:49.406 INFO  TestTransformedLocusWalker - Done initializing engine
20:47:49.406 INFO  ProgressMeter - Starting traversal
20:47:49.407 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
20:47:49.408 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
20:47:49.408 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
20:47:49.409 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
20:47:49.409 INFO  TestTransformedLocusWalker - Shutting down engine
[July 15, 2025 at 8:47:49 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=799014912
20:47:49.424 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.424 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-13-g9eb1b78-SNAPSHOT
20:47:49.424 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:47:49.424 INFO  TestTransformedLocusWalker - Executing as root@b6fedaba0a37 on Linux v6.11.0-1018-azure amd64
20:47:49.424 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
20:47:49.424 INFO  TestTransformedLocusWalker - Start Date/Time: July 15, 2025 at 8:47:49 PM GMT
20:47:49.424 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.424 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.424 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:47:49.425 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:47:49.425 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:47:49.425 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:47:49.425 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
20:47:49.425 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
20:47:49.425 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
20:47:49.425 INFO  TestTransformedLocusWalker - Requester pays: disabled
20:47:49.425 INFO  TestTransformedLocusWalker - Initializing engine
20:47:49.426 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
20:47:49.426 INFO  TestTransformedLocusWalker - Done initializing engine
20:47:49.427 INFO  ProgressMeter - Starting traversal
20:47:49.427 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
20:47:49.429 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
20:47:49.429 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
20:47:49.429 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
20:47:49.429 INFO  TestTransformedLocusWalker - Shutting down engine
[July 15, 2025 at 8:47:49 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=799014912
20:47:49.444 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.445 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-13-g9eb1b78-SNAPSHOT
20:47:49.445 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:47:49.445 INFO  TestTransformedLocusWalker - Executing as root@b6fedaba0a37 on Linux v6.11.0-1018-azure amd64
20:47:49.445 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
20:47:49.445 INFO  TestTransformedLocusWalker - Start Date/Time: July 15, 2025 at 8:47:49 PM GMT
20:47:49.445 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.445 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.445 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:47:49.445 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:47:49.445 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:47:49.445 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:47:49.445 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
20:47:49.445 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
20:47:49.445 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
20:47:49.445 INFO  TestTransformedLocusWalker - Requester pays: disabled
20:47:49.445 INFO  TestTransformedLocusWalker - Initializing engine
20:47:49.447 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
20:47:49.447 INFO  TestTransformedLocusWalker - Done initializing engine
20:47:49.447 INFO  ProgressMeter - Starting traversal
20:47:49.447 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
20:47:49.450 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
20:47:49.450 INFO  ProgressMeter -              20:2999              0.0                  2001       40020000.0
20:47:49.450 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
20:47:49.450 INFO  TestTransformedLocusWalker - Shutting down engine
[July 15, 2025 at 8:47:49 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=799014912
20:47:49.466 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.466 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-13-g9eb1b78-SNAPSHOT
20:47:49.466 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:47:49.466 INFO  TestTransformedLocusWalker - Executing as root@b6fedaba0a37 on Linux v6.11.0-1018-azure amd64
20:47:49.466 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
20:47:49.466 INFO  TestTransformedLocusWalker - Start Date/Time: July 15, 2025 at 8:47:49 PM GMT
20:47:49.466 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.466 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.466 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:47:49.466 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:47:49.466 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:47:49.466 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:47:49.466 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
20:47:49.466 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
20:47:49.467 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
20:47:49.467 INFO  TestTransformedLocusWalker - Requester pays: disabled
20:47:49.467 INFO  TestTransformedLocusWalker - Initializing engine
20:47:49.468 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
20:47:49.468 INFO  TestTransformedLocusWalker - Done initializing engine
20:47:49.468 INFO  ProgressMeter - Starting traversal
20:47:49.468 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
20:47:49.472 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
20:47:49.472 INFO  ProgressMeter -              20:3999              0.0                  2001       30015000.0
20:47:49.472 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
20:47:49.472 INFO  TestTransformedLocusWalker - Shutting down engine
[July 15, 2025 at 8:47:49 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=799014912
20:47:49.492 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.492 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-13-g9eb1b78-SNAPSHOT
20:47:49.492 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:47:49.492 INFO  TestTransformedLocusWalker - Executing as root@b6fedaba0a37 on Linux v6.11.0-1018-azure amd64
20:47:49.492 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
20:47:49.492 INFO  TestTransformedLocusWalker - Start Date/Time: July 15, 2025 at 8:47:49 PM GMT
20:47:49.493 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.493 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.493 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:47:49.493 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:47:49.493 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:47:49.493 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:47:49.493 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
20:47:49.493 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
20:47:49.493 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
20:47:49.493 INFO  TestTransformedLocusWalker - Requester pays: disabled
20:47:49.493 INFO  TestTransformedLocusWalker - Initializing engine
20:47:49.495 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
20:47:49.495 INFO  TestTransformedLocusWalker - Done initializing engine
20:47:49.495 INFO  ProgressMeter - Starting traversal
20:47:49.495 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
20:47:49.499 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
20:47:49.499 INFO  ProgressMeter -              21:3999              0.0                  2001       40020000.0
20:47:49.500 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
20:47:49.500 INFO  TestTransformedLocusWalker - Shutting down engine
[July 15, 2025 at 8:47:49 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=799014912
20:47:49.515 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.515 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-13-g9eb1b78-SNAPSHOT
20:47:49.515 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:47:49.515 INFO  TestTransformedLocusWalker - Executing as root@b6fedaba0a37 on Linux v6.11.0-1018-azure amd64
20:47:49.515 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
20:47:49.515 INFO  TestTransformedLocusWalker - Start Date/Time: July 15, 2025 at 8:47:49 PM GMT
20:47:49.515 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.515 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.515 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:47:49.515 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:47:49.515 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:47:49.516 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:47:49.516 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
20:47:49.516 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
20:47:49.516 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
20:47:49.516 INFO  TestTransformedLocusWalker - Requester pays: disabled
20:47:49.516 INFO  TestTransformedLocusWalker - Initializing engine
20:47:49.517 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
20:47:49.517 INFO  TestTransformedLocusWalker - Done initializing engine
20:47:49.517 INFO  ProgressMeter - Starting traversal
20:47:49.518 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
20:47:49.527 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
20:47:49.528 INFO  ProgressMeter -              20:3999              0.0                  2001       13340000.0
20:47:49.528 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
20:47:49.528 INFO  TestTransformedLocusWalker - Shutting down engine
[July 15, 2025 at 8:47:49 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=799014912
20:47:49.545 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.545 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-13-g9eb1b78-SNAPSHOT
20:47:49.545 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:47:49.545 INFO  TestTransformedLocusWalker - Executing as root@b6fedaba0a37 on Linux v6.11.0-1018-azure amd64
20:47:49.545 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
20:47:49.546 INFO  TestTransformedLocusWalker - Start Date/Time: July 15, 2025 at 8:47:49 PM GMT
20:47:49.546 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.546 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.546 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:47:49.546 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:47:49.546 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:47:49.546 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:47:49.546 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
20:47:49.546 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
20:47:49.546 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
20:47:49.546 INFO  TestTransformedLocusWalker - Requester pays: disabled
20:47:49.546 INFO  TestTransformedLocusWalker - Initializing engine
20:47:49.548 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
20:47:49.548 INFO  TestTransformedLocusWalker - Done initializing engine
20:47:49.548 INFO  ProgressMeter - Starting traversal
20:47:49.548 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
20:47:49.551 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
20:47:49.551 INFO  ProgressMeter -              20:1999              0.0                  1001       20020000.0
20:47:49.551 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
20:47:49.551 INFO  TestTransformedLocusWalker - Shutting down engine
[July 15, 2025 at 8:47:49 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=799014912
20:47:49.573 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.573 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-13-g9eb1b78-SNAPSHOT
20:47:49.573 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:47:49.573 INFO  TestTransformedLocusWalker - Executing as root@b6fedaba0a37 on Linux v6.11.0-1018-azure amd64
20:47:49.573 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
20:47:49.573 INFO  TestTransformedLocusWalker - Start Date/Time: July 15, 2025 at 8:47:49 PM GMT
20:47:49.573 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.573 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.573 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:47:49.573 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:47:49.573 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:47:49.573 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:47:49.573 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
20:47:49.573 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
20:47:49.573 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
20:47:49.573 INFO  TestTransformedLocusWalker - Requester pays: disabled
20:47:49.573 INFO  TestTransformedLocusWalker - Initializing engine
20:47:49.575 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
20:47:49.575 INFO  TestTransformedLocusWalker - Done initializing engine
20:47:49.575 INFO  ProgressMeter - Starting traversal
20:47:49.575 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
20:47:49.577 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
20:47:49.577 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
20:47:49.577 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
20:47:49.577 INFO  TestTransformedLocusWalker - Shutting down engine
[July 15, 2025 at 8:47:49 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=799014912
20:47:49.599 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.599 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-13-g9eb1b78-SNAPSHOT
20:47:49.599 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:47:49.599 INFO  TestTransformedLocusWalker - Executing as root@b6fedaba0a37 on Linux v6.11.0-1018-azure amd64
20:47:49.599 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
20:47:49.599 INFO  TestTransformedLocusWalker - Start Date/Time: July 15, 2025 at 8:47:49 PM GMT
20:47:49.599 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.599 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.599 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:47:49.599 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:47:49.599 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:47:49.599 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:47:49.599 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
20:47:49.600 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
20:47:49.600 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
20:47:49.600 INFO  TestTransformedLocusWalker - Requester pays: disabled
20:47:49.600 INFO  TestTransformedLocusWalker - Initializing engine
20:47:49.601 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
20:47:49.601 INFO  TestTransformedLocusWalker - Done initializing engine
20:47:49.601 INFO  ProgressMeter - Starting traversal
20:47:49.601 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
20:47:49.603 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
20:47:49.603 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
20:47:49.604 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
20:47:49.604 INFO  TestTransformedLocusWalker - Shutting down engine
[July 15, 2025 at 8:47:49 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=799014912
20:47:49.625 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.625 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-13-g9eb1b78-SNAPSHOT
20:47:49.625 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:47:49.625 INFO  TestTransformedLocusWalker - Executing as root@b6fedaba0a37 on Linux v6.11.0-1018-azure amd64
20:47:49.625 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
20:47:49.626 INFO  TestTransformedLocusWalker - Start Date/Time: July 15, 2025 at 8:47:49 PM GMT
20:47:49.626 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.626 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.626 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:47:49.626 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:47:49.626 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:47:49.626 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:47:49.626 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
20:47:49.626 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
20:47:49.626 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
20:47:49.626 INFO  TestTransformedLocusWalker - Requester pays: disabled
20:47:49.626 INFO  TestTransformedLocusWalker - Initializing engine
20:47:49.628 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
20:47:49.628 INFO  TestTransformedLocusWalker - Done initializing engine
20:47:49.628 INFO  ProgressMeter - Starting traversal
20:47:49.628 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
20:47:49.629 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
20:47:49.630 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
20:47:49.630 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
20:47:49.630 INFO  TestTransformedLocusWalker - Shutting down engine
[July 15, 2025 at 8:47:49 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=799014912
20:47:49.652 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.652 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-13-g9eb1b78-SNAPSHOT
20:47:49.652 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:47:49.652 INFO  TestTransformedLocusWalker - Executing as root@b6fedaba0a37 on Linux v6.11.0-1018-azure amd64
20:47:49.652 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
20:47:49.652 INFO  TestTransformedLocusWalker - Start Date/Time: July 15, 2025 at 8:47:49 PM GMT
20:47:49.652 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.652 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
20:47:49.652 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:47:49.652 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:47:49.652 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:47:49.652 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:47:49.652 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
20:47:49.652 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
20:47:49.652 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
20:47:49.652 INFO  TestTransformedLocusWalker - Requester pays: disabled
20:47:49.652 INFO  TestTransformedLocusWalker - Initializing engine
20:47:49.654 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
20:47:49.654 INFO  TestTransformedLocusWalker - Done initializing engine
20:47:49.654 INFO  ProgressMeter - Starting traversal
20:47:49.654 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
20:47:49.656 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
20:47:49.656 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
20:47:49.656 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
20:47:49.656 INFO  TestTransformedLocusWalker - Shutting down engine
[July 15, 2025 at 8:47:49 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=799014912