Class org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest

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

tests
0

failures
0

ignored
0.301s

duration
100%

successful

Tests

Test Duration Result
testOverlappingBasesCoverageInformation[0]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@49443539, [I@352ad7fe) 0.035s passed
testOverlappingBasesCoverageInformation[10]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@6b89cbc0, [I@7a9c91e7) 0.027s passed
testOverlappingBasesCoverageInformation[11]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@781ce680, [I@31167d7) 0.025s passed
testOverlappingBasesCoverageInformation[12]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@52357015, [I@4a595315) 0.025s passed
testOverlappingBasesCoverageInformation[1]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@61252eef, [I@20f4849c) 0.018s passed
testOverlappingBasesCoverageInformation[2]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@705448e7, [I@2f3809cf) 0.018s passed
testOverlappingBasesCoverageInformation[3]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@5ffdea7c, [I@2dadadd9) 0.018s passed
testOverlappingBasesCoverageInformation[4]([20:1000-2000, 20:2001-3000], [Lhtsjdk.samtools.util.Locatable;@73b77d07, [I@7f66d549) 0.019s passed
testOverlappingBasesCoverageInformation[5]([20:1000-2000, 20:3001-4000], [Lhtsjdk.samtools.util.Locatable;@3952621d, [I@4d7143de) 0.018s passed
testOverlappingBasesCoverageInformation[6]([20:1000-2000, 21:3001-4000], [Lhtsjdk.samtools.util.Locatable;@4355f7b6, [I@5ce50896) 0.020s passed
testOverlappingBasesCoverageInformation[7]([20:1000-2000, 20:3001-4000], [Lhtsjdk.samtools.util.Locatable;@3eeba527, [I@9252e52) 0.025s passed
testOverlappingBasesCoverageInformation[8]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@33650678, [I@3925aa6a) 0.027s passed
testOverlappingBasesCoverageInformation[9]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@304c8f39, [I@525efc8c) 0.026s passed

Standard error

22:03:38.529 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.529 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-2-gfa08e16-SNAPSHOT
22:03:38.529 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
22:03:38.529 INFO  TestTransformedLocusWalker - Executing as root@f99bdcf77b66 on Linux v6.8.0-1021-azure amd64
22:03:38.529 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
22:03:38.529 INFO  TestTransformedLocusWalker - Start Date/Time: April 22, 2025 at 10:03:38 PM GMT
22:03:38.529 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.529 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.529 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
22:03:38.530 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
22:03:38.530 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
22:03:38.530 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
22:03:38.530 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
22:03:38.530 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
22:03:38.530 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
22:03:38.530 INFO  TestTransformedLocusWalker - Requester pays: disabled
22:03:38.530 INFO  TestTransformedLocusWalker - Initializing engine
22:03:38.532 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
22:03:38.532 INFO  TestTransformedLocusWalker - Done initializing engine
22:03:38.532 INFO  ProgressMeter - Starting traversal
22:03:38.532 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
22:03:38.546 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
22:03:38.547 INFO  ProgressMeter -              20:1999              0.0                  1001        4290000.0
22:03:38.547 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
22:03:38.547 INFO  TestTransformedLocusWalker - Shutting down engine
[April 22, 2025 at 10:03:38 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=910163968
22:03:38.561 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.562 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-2-gfa08e16-SNAPSHOT
22:03:38.562 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
22:03:38.562 INFO  TestTransformedLocusWalker - Executing as root@f99bdcf77b66 on Linux v6.8.0-1021-azure amd64
22:03:38.562 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
22:03:38.562 INFO  TestTransformedLocusWalker - Start Date/Time: April 22, 2025 at 10:03:38 PM GMT
22:03:38.562 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.562 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.562 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
22:03:38.562 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
22:03:38.562 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
22:03:38.562 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
22:03:38.562 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
22:03:38.562 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
22:03:38.562 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
22:03:38.562 INFO  TestTransformedLocusWalker - Requester pays: disabled
22:03:38.562 INFO  TestTransformedLocusWalker - Initializing engine
22:03:38.564 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
22:03:38.564 INFO  TestTransformedLocusWalker - Done initializing engine
22:03:38.564 INFO  ProgressMeter - Starting traversal
22:03:38.564 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
22:03:38.566 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
22:03:38.566 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
22:03:38.566 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
22:03:38.566 INFO  TestTransformedLocusWalker - Shutting down engine
[April 22, 2025 at 10:03:38 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=910163968
22:03:38.580 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.580 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-2-gfa08e16-SNAPSHOT
22:03:38.580 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
22:03:38.580 INFO  TestTransformedLocusWalker - Executing as root@f99bdcf77b66 on Linux v6.8.0-1021-azure amd64
22:03:38.580 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
22:03:38.580 INFO  TestTransformedLocusWalker - Start Date/Time: April 22, 2025 at 10:03:38 PM GMT
22:03:38.580 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.580 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.581 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
22:03:38.581 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
22:03:38.581 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
22:03:38.581 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
22:03:38.581 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
22:03:38.581 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
22:03:38.581 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
22:03:38.581 INFO  TestTransformedLocusWalker - Requester pays: disabled
22:03:38.581 INFO  TestTransformedLocusWalker - Initializing engine
22:03:38.582 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
22:03:38.582 INFO  TestTransformedLocusWalker - Done initializing engine
22:03:38.582 INFO  ProgressMeter - Starting traversal
22:03:38.582 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
22:03:38.583 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
22:03:38.584 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
22:03:38.584 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
22:03:38.584 INFO  TestTransformedLocusWalker - Shutting down engine
[April 22, 2025 at 10:03:38 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=910163968
22:03:38.598 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.598 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-2-gfa08e16-SNAPSHOT
22:03:38.598 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
22:03:38.598 INFO  TestTransformedLocusWalker - Executing as root@f99bdcf77b66 on Linux v6.8.0-1021-azure amd64
22:03:38.598 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
22:03:38.598 INFO  TestTransformedLocusWalker - Start Date/Time: April 22, 2025 at 10:03:38 PM GMT
22:03:38.598 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.598 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.598 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
22:03:38.598 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
22:03:38.598 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
22:03:38.598 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
22:03:38.598 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
22:03:38.598 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
22:03:38.598 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
22:03:38.598 INFO  TestTransformedLocusWalker - Requester pays: disabled
22:03:38.598 INFO  TestTransformedLocusWalker - Initializing engine
22:03:38.600 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
22:03:38.600 INFO  TestTransformedLocusWalker - Done initializing engine
22:03:38.600 INFO  ProgressMeter - Starting traversal
22:03:38.600 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
22:03:38.602 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
22:03:38.602 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
22:03:38.602 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
22:03:38.602 INFO  TestTransformedLocusWalker - Shutting down engine
[April 22, 2025 at 10:03:38 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=910163968
22:03:38.616 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.616 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-2-gfa08e16-SNAPSHOT
22:03:38.616 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
22:03:38.616 INFO  TestTransformedLocusWalker - Executing as root@f99bdcf77b66 on Linux v6.8.0-1021-azure amd64
22:03:38.616 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
22:03:38.616 INFO  TestTransformedLocusWalker - Start Date/Time: April 22, 2025 at 10:03:38 PM GMT
22:03:38.616 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.616 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.616 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
22:03:38.616 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
22:03:38.616 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
22:03:38.616 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
22:03:38.616 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
22:03:38.617 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
22:03:38.617 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
22:03:38.617 INFO  TestTransformedLocusWalker - Requester pays: disabled
22:03:38.617 INFO  TestTransformedLocusWalker - Initializing engine
22:03:38.618 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
22:03:38.618 INFO  TestTransformedLocusWalker - Done initializing engine
22:03:38.618 INFO  ProgressMeter - Starting traversal
22:03:38.618 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
22:03:38.621 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
22:03:38.621 INFO  ProgressMeter -              20:2999              0.0                  2001       40020000.0
22:03:38.621 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
22:03:38.621 INFO  TestTransformedLocusWalker - Shutting down engine
[April 22, 2025 at 10:03:38 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=910163968
22:03:38.635 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.635 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-2-gfa08e16-SNAPSHOT
22:03:38.635 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
22:03:38.635 INFO  TestTransformedLocusWalker - Executing as root@f99bdcf77b66 on Linux v6.8.0-1021-azure amd64
22:03:38.635 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
22:03:38.635 INFO  TestTransformedLocusWalker - Start Date/Time: April 22, 2025 at 10:03:38 PM GMT
22:03:38.635 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.635 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.635 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
22:03:38.635 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
22:03:38.636 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
22:03:38.636 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
22:03:38.636 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
22:03:38.636 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
22:03:38.636 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
22:03:38.636 INFO  TestTransformedLocusWalker - Requester pays: disabled
22:03:38.636 INFO  TestTransformedLocusWalker - Initializing engine
22:03:38.637 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
22:03:38.637 INFO  TestTransformedLocusWalker - Done initializing engine
22:03:38.637 INFO  ProgressMeter - Starting traversal
22:03:38.637 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
22:03:38.640 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
22:03:38.640 INFO  ProgressMeter -              20:3999              0.0                  2001       40020000.0
22:03:38.640 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
22:03:38.640 INFO  TestTransformedLocusWalker - Shutting down engine
[April 22, 2025 at 10:03:38 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=910163968
22:03:38.654 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.654 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-2-gfa08e16-SNAPSHOT
22:03:38.654 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
22:03:38.655 INFO  TestTransformedLocusWalker - Executing as root@f99bdcf77b66 on Linux v6.8.0-1021-azure amd64
22:03:38.655 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
22:03:38.655 INFO  TestTransformedLocusWalker - Start Date/Time: April 22, 2025 at 10:03:38 PM GMT
22:03:38.655 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.655 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.655 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
22:03:38.655 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
22:03:38.655 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
22:03:38.655 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
22:03:38.655 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
22:03:38.655 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
22:03:38.655 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
22:03:38.655 INFO  TestTransformedLocusWalker - Requester pays: disabled
22:03:38.655 INFO  TestTransformedLocusWalker - Initializing engine
22:03:38.656 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
22:03:38.657 INFO  TestTransformedLocusWalker - Done initializing engine
22:03:38.657 INFO  ProgressMeter - Starting traversal
22:03:38.657 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
22:03:38.659 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
22:03:38.659 INFO  ProgressMeter -              21:3999              0.0                  2001       60030000.0
22:03:38.659 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
22:03:38.659 INFO  TestTransformedLocusWalker - Shutting down engine
[April 22, 2025 at 10:03:38 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=910163968
22:03:38.674 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.674 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-2-gfa08e16-SNAPSHOT
22:03:38.674 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
22:03:38.674 INFO  TestTransformedLocusWalker - Executing as root@f99bdcf77b66 on Linux v6.8.0-1021-azure amd64
22:03:38.674 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
22:03:38.674 INFO  TestTransformedLocusWalker - Start Date/Time: April 22, 2025 at 10:03:38 PM GMT
22:03:38.674 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.674 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.674 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
22:03:38.675 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
22:03:38.675 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
22:03:38.675 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
22:03:38.675 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
22:03:38.675 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
22:03:38.675 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
22:03:38.675 INFO  TestTransformedLocusWalker - Requester pays: disabled
22:03:38.675 INFO  TestTransformedLocusWalker - Initializing engine
22:03:38.676 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
22:03:38.676 INFO  TestTransformedLocusWalker - Done initializing engine
22:03:38.676 INFO  ProgressMeter - Starting traversal
22:03:38.676 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
22:03:38.685 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
22:03:38.685 INFO  ProgressMeter -              20:3999              0.0                  2001       13340000.0
22:03:38.685 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
22:03:38.685 INFO  TestTransformedLocusWalker - Shutting down engine
[April 22, 2025 at 10:03:38 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=910163968
22:03:38.705 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.705 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-2-gfa08e16-SNAPSHOT
22:03:38.705 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
22:03:38.705 INFO  TestTransformedLocusWalker - Executing as root@f99bdcf77b66 on Linux v6.8.0-1021-azure amd64
22:03:38.705 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
22:03:38.705 INFO  TestTransformedLocusWalker - Start Date/Time: April 22, 2025 at 10:03:38 PM GMT
22:03:38.706 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.706 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.706 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
22:03:38.706 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
22:03:38.706 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
22:03:38.706 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
22:03:38.706 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
22:03:38.706 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
22:03:38.706 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
22:03:38.706 INFO  TestTransformedLocusWalker - Requester pays: disabled
22:03:38.706 INFO  TestTransformedLocusWalker - Initializing engine
22:03:38.708 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
22:03:38.708 INFO  TestTransformedLocusWalker - Done initializing engine
22:03:38.708 INFO  ProgressMeter - Starting traversal
22:03:38.708 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
22:03:38.710 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
22:03:38.710 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
22:03:38.710 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
22:03:38.710 INFO  TestTransformedLocusWalker - Shutting down engine
[April 22, 2025 at 10:03:38 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=910163968
22:03:38.733 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.733 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-2-gfa08e16-SNAPSHOT
22:03:38.733 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
22:03:38.733 INFO  TestTransformedLocusWalker - Executing as root@f99bdcf77b66 on Linux v6.8.0-1021-azure amd64
22:03:38.733 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
22:03:38.733 INFO  TestTransformedLocusWalker - Start Date/Time: April 22, 2025 at 10:03:38 PM GMT
22:03:38.733 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.734 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.734 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
22:03:38.734 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
22:03:38.734 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
22:03:38.734 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
22:03:38.734 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
22:03:38.734 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
22:03:38.734 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
22:03:38.734 INFO  TestTransformedLocusWalker - Requester pays: disabled
22:03:38.734 INFO  TestTransformedLocusWalker - Initializing engine
22:03:38.735 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
22:03:38.736 INFO  TestTransformedLocusWalker - Done initializing engine
22:03:38.736 INFO  ProgressMeter - Starting traversal
22:03:38.736 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
22:03:38.737 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
22:03:38.738 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
22:03:38.738 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
22:03:38.738 INFO  TestTransformedLocusWalker - Shutting down engine
[April 22, 2025 at 10:03:38 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=910163968
22:03:38.760 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.760 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-2-gfa08e16-SNAPSHOT
22:03:38.760 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
22:03:38.760 INFO  TestTransformedLocusWalker - Executing as root@f99bdcf77b66 on Linux v6.8.0-1021-azure amd64
22:03:38.760 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
22:03:38.760 INFO  TestTransformedLocusWalker - Start Date/Time: April 22, 2025 at 10:03:38 PM GMT
22:03:38.760 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.760 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.760 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
22:03:38.760 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
22:03:38.760 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
22:03:38.760 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
22:03:38.760 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
22:03:38.760 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
22:03:38.761 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
22:03:38.761 INFO  TestTransformedLocusWalker - Requester pays: disabled
22:03:38.761 INFO  TestTransformedLocusWalker - Initializing engine
22:03:38.762 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
22:03:38.762 INFO  TestTransformedLocusWalker - Done initializing engine
22:03:38.762 INFO  ProgressMeter - Starting traversal
22:03:38.762 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
22:03:38.764 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
22:03:38.764 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
22:03:38.764 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
22:03:38.764 INFO  TestTransformedLocusWalker - Shutting down engine
[April 22, 2025 at 10:03:38 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=910163968
22:03:38.786 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.786 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-2-gfa08e16-SNAPSHOT
22:03:38.786 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
22:03:38.786 INFO  TestTransformedLocusWalker - Executing as root@f99bdcf77b66 on Linux v6.8.0-1021-azure amd64
22:03:38.786 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
22:03:38.786 INFO  TestTransformedLocusWalker - Start Date/Time: April 22, 2025 at 10:03:38 PM GMT
22:03:38.786 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.786 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.786 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
22:03:38.786 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
22:03:38.786 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
22:03:38.786 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
22:03:38.786 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
22:03:38.786 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
22:03:38.786 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
22:03:38.786 INFO  TestTransformedLocusWalker - Requester pays: disabled
22:03:38.786 INFO  TestTransformedLocusWalker - Initializing engine
22:03:38.788 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
22:03:38.788 INFO  TestTransformedLocusWalker - Done initializing engine
22:03:38.788 INFO  ProgressMeter - Starting traversal
22:03:38.788 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
22:03:38.790 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
22:03:38.790 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
22:03:38.790 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
22:03:38.790 INFO  TestTransformedLocusWalker - Shutting down engine
[April 22, 2025 at 10:03:38 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=910163968
22:03:38.811 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.811 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-2-gfa08e16-SNAPSHOT
22:03:38.811 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
22:03:38.811 INFO  TestTransformedLocusWalker - Executing as root@f99bdcf77b66 on Linux v6.8.0-1021-azure amd64
22:03:38.811 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
22:03:38.811 INFO  TestTransformedLocusWalker - Start Date/Time: April 22, 2025 at 10:03:38 PM GMT
22:03:38.811 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.812 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
22:03:38.812 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
22:03:38.812 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
22:03:38.812 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
22:03:38.812 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
22:03:38.812 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
22:03:38.812 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
22:03:38.812 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
22:03:38.812 INFO  TestTransformedLocusWalker - Requester pays: disabled
22:03:38.812 INFO  TestTransformedLocusWalker - Initializing engine
22:03:38.813 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
22:03:38.813 INFO  TestTransformedLocusWalker - Done initializing engine
22:03:38.813 INFO  ProgressMeter - Starting traversal
22:03:38.814 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
22:03:38.815 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
22:03:38.815 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
22:03:38.815 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
22:03:38.815 INFO  TestTransformedLocusWalker - Shutting down engine
[April 22, 2025 at 10:03:38 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=910163968