Class org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest

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

tests
0

failures
0

ignored
0.300s

duration
100%

successful

Tests

Test Duration Result
testOverlappingBasesCoverageInformation[0]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@30a816b8, [I@5e39a9ba) 0.037s passed
testOverlappingBasesCoverageInformation[10]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@4cd78959, [I@128acee) 0.021s passed
testOverlappingBasesCoverageInformation[11]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@24ed4582, [I@18601f1e) 0.020s passed
testOverlappingBasesCoverageInformation[12]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@2c9c7f4a, [I@d679e86) 0.021s passed
testOverlappingBasesCoverageInformation[1]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@22717282, [I@667b3972) 0.022s passed
testOverlappingBasesCoverageInformation[2]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@47fa54d, [I@3432a612) 0.021s passed
testOverlappingBasesCoverageInformation[3]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@5e4168dd, [I@5a3783e4) 0.021s passed
testOverlappingBasesCoverageInformation[4]([20:1000-2000, 20:2001-3000], [Lhtsjdk.samtools.util.Locatable;@60aee4ca, [I@6a3a3b93) 0.021s passed
testOverlappingBasesCoverageInformation[5]([20:1000-2000, 20:3001-4000], [Lhtsjdk.samtools.util.Locatable;@78a5c127, [I@102ee705) 0.022s passed
testOverlappingBasesCoverageInformation[6]([20:1000-2000, 21:3001-4000], [Lhtsjdk.samtools.util.Locatable;@30464500, [I@60219a32) 0.027s passed
testOverlappingBasesCoverageInformation[7]([20:1000-2000, 20:3001-4000], [Lhtsjdk.samtools.util.Locatable;@1b8117f4, [I@62af3d4c) 0.028s passed
testOverlappingBasesCoverageInformation[8]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@428c9250, [I@7c1a4a74) 0.020s passed
testOverlappingBasesCoverageInformation[9]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@b0bb7f1, [I@67a725fe) 0.019s passed

Standard error

21:17:51.714 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.714 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.1.0-11-g40db79c-SNAPSHOT
21:17:51.714 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
21:17:51.714 INFO  TestTransformedLocusWalker - Executing as root@947a58c13613 on Linux v6.8.0-1020-azure amd64
21:17:51.714 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
21:17:51.714 INFO  TestTransformedLocusWalker - Start Date/Time: February 10, 2025 at 9:17:51 PM GMT
21:17:51.715 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.715 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.715 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
21:17:51.715 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
21:17:51.715 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
21:17:51.715 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
21:17:51.715 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
21:17:51.715 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
21:17:51.715 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
21:17:51.715 INFO  TestTransformedLocusWalker - Requester pays: disabled
21:17:51.715 INFO  TestTransformedLocusWalker - Initializing engine
21:17:51.717 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
21:17:51.717 INFO  TestTransformedLocusWalker - Done initializing engine
21:17:51.717 INFO  ProgressMeter - Starting traversal
21:17:51.717 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
21:17:51.733 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
21:17:51.734 INFO  ProgressMeter -              20:1999              0.0                  1001        3753750.0
21:17:51.734 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
21:17:51.734 INFO  TestTransformedLocusWalker - Shutting down engine
[February 10, 2025 at 9:17:51 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=849346560
21:17:51.751 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.751 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.1.0-11-g40db79c-SNAPSHOT
21:17:51.751 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
21:17:51.751 INFO  TestTransformedLocusWalker - Executing as root@947a58c13613 on Linux v6.8.0-1020-azure amd64
21:17:51.751 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
21:17:51.751 INFO  TestTransformedLocusWalker - Start Date/Time: February 10, 2025 at 9:17:51 PM GMT
21:17:51.751 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.751 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.751 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
21:17:51.751 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
21:17:51.751 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
21:17:51.752 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
21:17:51.752 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
21:17:51.752 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
21:17:51.752 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
21:17:51.752 INFO  TestTransformedLocusWalker - Requester pays: disabled
21:17:51.752 INFO  TestTransformedLocusWalker - Initializing engine
21:17:51.753 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
21:17:51.754 INFO  TestTransformedLocusWalker - Done initializing engine
21:17:51.754 INFO  ProgressMeter - Starting traversal
21:17:51.754 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
21:17:51.757 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
21:17:51.757 INFO  ProgressMeter -              20:1999              0.0                  1001       20020000.0
21:17:51.757 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
21:17:51.757 INFO  TestTransformedLocusWalker - Shutting down engine
[February 10, 2025 at 9:17:51 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=849346560
21:17:51.773 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.773 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.1.0-11-g40db79c-SNAPSHOT
21:17:51.773 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
21:17:51.773 INFO  TestTransformedLocusWalker - Executing as root@947a58c13613 on Linux v6.8.0-1020-azure amd64
21:17:51.774 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
21:17:51.774 INFO  TestTransformedLocusWalker - Start Date/Time: February 10, 2025 at 9:17:51 PM GMT
21:17:51.774 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.774 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.774 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
21:17:51.774 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
21:17:51.774 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
21:17:51.774 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
21:17:51.774 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
21:17:51.774 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
21:17:51.774 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
21:17:51.774 INFO  TestTransformedLocusWalker - Requester pays: disabled
21:17:51.774 INFO  TestTransformedLocusWalker - Initializing engine
21:17:51.776 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
21:17:51.776 INFO  TestTransformedLocusWalker - Done initializing engine
21:17:51.776 INFO  ProgressMeter - Starting traversal
21:17:51.776 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
21:17:51.778 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
21:17:51.778 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
21:17:51.778 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
21:17:51.778 INFO  TestTransformedLocusWalker - Shutting down engine
[February 10, 2025 at 9:17:51 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=849346560
21:17:51.794 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.795 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.1.0-11-g40db79c-SNAPSHOT
21:17:51.795 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
21:17:51.795 INFO  TestTransformedLocusWalker - Executing as root@947a58c13613 on Linux v6.8.0-1020-azure amd64
21:17:51.795 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
21:17:51.795 INFO  TestTransformedLocusWalker - Start Date/Time: February 10, 2025 at 9:17:51 PM GMT
21:17:51.795 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.795 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.795 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
21:17:51.795 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
21:17:51.795 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
21:17:51.795 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
21:17:51.795 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
21:17:51.795 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
21:17:51.795 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
21:17:51.795 INFO  TestTransformedLocusWalker - Requester pays: disabled
21:17:51.795 INFO  TestTransformedLocusWalker - Initializing engine
21:17:51.797 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
21:17:51.797 INFO  TestTransformedLocusWalker - Done initializing engine
21:17:51.797 INFO  ProgressMeter - Starting traversal
21:17:51.797 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
21:17:51.800 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
21:17:51.800 INFO  ProgressMeter -              20:1999              0.0                  1001       20020000.0
21:17:51.800 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
21:17:51.800 INFO  TestTransformedLocusWalker - Shutting down engine
[February 10, 2025 at 9:17:51 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=849346560
21:17:51.816 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.816 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.1.0-11-g40db79c-SNAPSHOT
21:17:51.816 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
21:17:51.816 INFO  TestTransformedLocusWalker - Executing as root@947a58c13613 on Linux v6.8.0-1020-azure amd64
21:17:51.816 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
21:17:51.816 INFO  TestTransformedLocusWalker - Start Date/Time: February 10, 2025 at 9:17:51 PM GMT
21:17:51.816 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.816 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.816 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
21:17:51.816 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
21:17:51.816 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
21:17:51.816 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
21:17:51.817 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
21:17:51.817 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
21:17:51.817 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
21:17:51.817 INFO  TestTransformedLocusWalker - Requester pays: disabled
21:17:51.817 INFO  TestTransformedLocusWalker - Initializing engine
21:17:51.818 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
21:17:51.818 INFO  TestTransformedLocusWalker - Done initializing engine
21:17:51.818 INFO  ProgressMeter - Starting traversal
21:17:51.818 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
21:17:51.821 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
21:17:51.821 INFO  ProgressMeter -              20:2999              0.0                  2001       40020000.0
21:17:51.821 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
21:17:51.821 INFO  TestTransformedLocusWalker - Shutting down engine
[February 10, 2025 at 9:17:51 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=849346560
21:17:51.838 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.838 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.1.0-11-g40db79c-SNAPSHOT
21:17:51.838 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
21:17:51.838 INFO  TestTransformedLocusWalker - Executing as root@947a58c13613 on Linux v6.8.0-1020-azure amd64
21:17:51.838 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
21:17:51.838 INFO  TestTransformedLocusWalker - Start Date/Time: February 10, 2025 at 9:17:51 PM GMT
21:17:51.838 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.838 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.839 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
21:17:51.839 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
21:17:51.839 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
21:17:51.839 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
21:17:51.839 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
21:17:51.839 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
21:17:51.839 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
21:17:51.839 INFO  TestTransformedLocusWalker - Requester pays: disabled
21:17:51.839 INFO  TestTransformedLocusWalker - Initializing engine
21:17:51.840 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
21:17:51.840 INFO  TestTransformedLocusWalker - Done initializing engine
21:17:51.840 INFO  ProgressMeter - Starting traversal
21:17:51.841 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
21:17:51.843 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
21:17:51.843 INFO  ProgressMeter -              20:3999              0.0                  2001       60030000.0
21:17:51.843 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
21:17:51.843 INFO  TestTransformedLocusWalker - Shutting down engine
[February 10, 2025 at 9:17:51 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=849346560
21:17:51.865 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.865 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.1.0-11-g40db79c-SNAPSHOT
21:17:51.865 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
21:17:51.865 INFO  TestTransformedLocusWalker - Executing as root@947a58c13613 on Linux v6.8.0-1020-azure amd64
21:17:51.865 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
21:17:51.865 INFO  TestTransformedLocusWalker - Start Date/Time: February 10, 2025 at 9:17:51 PM GMT
21:17:51.865 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.865 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.865 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
21:17:51.865 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
21:17:51.865 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
21:17:51.865 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
21:17:51.865 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
21:17:51.865 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
21:17:51.865 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
21:17:51.865 INFO  TestTransformedLocusWalker - Requester pays: disabled
21:17:51.865 INFO  TestTransformedLocusWalker - Initializing engine
21:17:51.868 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
21:17:51.868 INFO  TestTransformedLocusWalker - Done initializing engine
21:17:51.868 INFO  ProgressMeter - Starting traversal
21:17:51.868 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
21:17:51.870 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
21:17:51.870 INFO  ProgressMeter -              21:3999              0.0                  2001       60030000.0
21:17:51.870 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
21:17:51.870 INFO  TestTransformedLocusWalker - Shutting down engine
[February 10, 2025 at 9:17:51 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=849346560
21:17:51.887 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.887 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.1.0-11-g40db79c-SNAPSHOT
21:17:51.887 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
21:17:51.887 INFO  TestTransformedLocusWalker - Executing as root@947a58c13613 on Linux v6.8.0-1020-azure amd64
21:17:51.887 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
21:17:51.887 INFO  TestTransformedLocusWalker - Start Date/Time: February 10, 2025 at 9:17:51 PM GMT
21:17:51.888 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.888 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.888 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
21:17:51.888 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
21:17:51.888 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
21:17:51.888 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
21:17:51.888 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
21:17:51.888 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
21:17:51.888 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
21:17:51.888 INFO  TestTransformedLocusWalker - Requester pays: disabled
21:17:51.888 INFO  TestTransformedLocusWalker - Initializing engine
21:17:51.889 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
21:17:51.890 INFO  TestTransformedLocusWalker - Done initializing engine
21:17:51.890 INFO  ProgressMeter - Starting traversal
21:17:51.890 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
21:17:51.898 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
21:17:51.898 INFO  ProgressMeter -              20:3999              0.0                  2001       15007500.0
21:17:51.898 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
21:17:51.899 INFO  TestTransformedLocusWalker - Shutting down engine
[February 10, 2025 at 9:17:51 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=849346560
21:17:51.915 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.915 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.1.0-11-g40db79c-SNAPSHOT
21:17:51.915 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
21:17:51.915 INFO  TestTransformedLocusWalker - Executing as root@947a58c13613 on Linux v6.8.0-1020-azure amd64
21:17:51.915 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
21:17:51.915 INFO  TestTransformedLocusWalker - Start Date/Time: February 10, 2025 at 9:17:51 PM GMT
21:17:51.915 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.915 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.915 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
21:17:51.915 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
21:17:51.915 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
21:17:51.915 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
21:17:51.915 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
21:17:51.915 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
21:17:51.915 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
21:17:51.915 INFO  TestTransformedLocusWalker - Requester pays: disabled
21:17:51.916 INFO  TestTransformedLocusWalker - Initializing engine
21:17:51.917 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
21:17:51.917 INFO  TestTransformedLocusWalker - Done initializing engine
21:17:51.917 INFO  ProgressMeter - Starting traversal
21:17:51.917 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
21:17:51.919 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
21:17:51.919 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
21:17:51.919 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
21:17:51.919 INFO  TestTransformedLocusWalker - Shutting down engine
[February 10, 2025 at 9:17:51 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=849346560
21:17:51.935 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.935 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.1.0-11-g40db79c-SNAPSHOT
21:17:51.935 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
21:17:51.935 INFO  TestTransformedLocusWalker - Executing as root@947a58c13613 on Linux v6.8.0-1020-azure amd64
21:17:51.935 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
21:17:51.935 INFO  TestTransformedLocusWalker - Start Date/Time: February 10, 2025 at 9:17:51 PM GMT
21:17:51.935 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.935 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.935 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
21:17:51.935 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
21:17:51.935 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
21:17:51.935 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
21:17:51.935 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
21:17:51.935 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
21:17:51.936 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
21:17:51.936 INFO  TestTransformedLocusWalker - Requester pays: disabled
21:17:51.936 INFO  TestTransformedLocusWalker - Initializing engine
21:17:51.937 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
21:17:51.937 INFO  TestTransformedLocusWalker - Done initializing engine
21:17:51.937 INFO  ProgressMeter - Starting traversal
21:17:51.937 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
21:17:51.938 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
21:17:51.938 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
21:17:51.939 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
21:17:51.939 INFO  TestTransformedLocusWalker - Shutting down engine
[February 10, 2025 at 9:17:51 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=849346560
21:17:51.956 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.956 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.1.0-11-g40db79c-SNAPSHOT
21:17:51.956 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
21:17:51.956 INFO  TestTransformedLocusWalker - Executing as root@947a58c13613 on Linux v6.8.0-1020-azure amd64
21:17:51.956 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
21:17:51.956 INFO  TestTransformedLocusWalker - Start Date/Time: February 10, 2025 at 9:17:51 PM GMT
21:17:51.956 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.956 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.956 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
21:17:51.956 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
21:17:51.956 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
21:17:51.956 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
21:17:51.956 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
21:17:51.956 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
21:17:51.956 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
21:17:51.956 INFO  TestTransformedLocusWalker - Requester pays: disabled
21:17:51.956 INFO  TestTransformedLocusWalker - Initializing engine
21:17:51.958 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
21:17:51.958 INFO  TestTransformedLocusWalker - Done initializing engine
21:17:51.958 INFO  ProgressMeter - Starting traversal
21:17:51.958 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
21:17:51.959 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
21:17:51.959 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
21:17:51.959 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
21:17:51.959 INFO  TestTransformedLocusWalker - Shutting down engine
[February 10, 2025 at 9:17:51 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=849346560
21:17:51.975 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.975 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.1.0-11-g40db79c-SNAPSHOT
21:17:51.975 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
21:17:51.976 INFO  TestTransformedLocusWalker - Executing as root@947a58c13613 on Linux v6.8.0-1020-azure amd64
21:17:51.976 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
21:17:51.976 INFO  TestTransformedLocusWalker - Start Date/Time: February 10, 2025 at 9:17:51 PM GMT
21:17:51.976 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.976 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.976 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
21:17:51.976 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
21:17:51.976 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
21:17:51.976 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
21:17:51.976 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
21:17:51.976 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
21:17:51.976 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
21:17:51.976 INFO  TestTransformedLocusWalker - Requester pays: disabled
21:17:51.976 INFO  TestTransformedLocusWalker - Initializing engine
21:17:51.978 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
21:17:51.978 INFO  TestTransformedLocusWalker - Done initializing engine
21:17:51.978 INFO  ProgressMeter - Starting traversal
21:17:51.978 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
21:17:51.979 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
21:17:51.980 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
21:17:51.980 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
21:17:51.980 INFO  TestTransformedLocusWalker - Shutting down engine
[February 10, 2025 at 9:17:51 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=849346560
21:17:51.997 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.997 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.1.0-11-g40db79c-SNAPSHOT
21:17:51.997 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
21:17:51.997 INFO  TestTransformedLocusWalker - Executing as root@947a58c13613 on Linux v6.8.0-1020-azure amd64
21:17:51.997 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
21:17:51.997 INFO  TestTransformedLocusWalker - Start Date/Time: February 10, 2025 at 9:17:51 PM GMT
21:17:51.998 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.998 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
21:17:51.998 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
21:17:51.998 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
21:17:51.998 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
21:17:51.998 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
21:17:51.998 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
21:17:51.998 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
21:17:51.998 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
21:17:51.998 INFO  TestTransformedLocusWalker - Requester pays: disabled
21:17:51.998 INFO  TestTransformedLocusWalker - Initializing engine
21:17:52.000 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
21:17:52.000 INFO  TestTransformedLocusWalker - Done initializing engine
21:17:52.000 INFO  ProgressMeter - Starting traversal
21:17:52.000 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
21:17:52.001 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
21:17:52.001 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
21:17:52.001 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
21:17:52.001 INFO  TestTransformedLocusWalker - Shutting down engine
[February 10, 2025 at 9:17:52 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=849346560