Class org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest

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

tests
0

failures
0

ignored
0.340s

duration
100%

successful

Tests

Test Duration Result
testOverlappingBasesCoverageInformation[0]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@49443539, [I@352ad7fe) 0.036s passed
testOverlappingBasesCoverageInformation[10]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@6b89cbc0, [I@7a9c91e7) 0.025s 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) 0.026s passed
testOverlappingBasesCoverageInformation[1]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@791d23ff, [I@61252eef) 0.021s passed
testOverlappingBasesCoverageInformation[2]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@2eef2fd6, [I@705448e7) 0.020s passed
testOverlappingBasesCoverageInformation[3]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@5008c5a, [I@5ffdea7c) 0.020s passed
testOverlappingBasesCoverageInformation[4]([20:1000-2000, 20:2001-3000], [Lhtsjdk.samtools.util.Locatable;@5be86750, [I@73b77d07) 0.021s passed
testOverlappingBasesCoverageInformation[5]([20:1000-2000, 20:3001-4000], [Lhtsjdk.samtools.util.Locatable;@523a10a0, [I@3952621d) 0.023s passed
testOverlappingBasesCoverageInformation[6]([20:1000-2000, 21:3001-4000], [Lhtsjdk.samtools.util.Locatable;@6de7c6bd, [I@4355f7b6) 0.029s passed
testOverlappingBasesCoverageInformation[7]([20:1000-2000, 20:3001-4000], [Lhtsjdk.samtools.util.Locatable;@27dbe9a3, [I@3eeba527) 0.040s passed
testOverlappingBasesCoverageInformation[8]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@143211f1, [I@33650678) 0.030s passed
testOverlappingBasesCoverageInformation[9]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@304c8f39, [I@525efc8c) 0.024s passed

Standard error

16:12:11.091 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.091 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-4-g6e00a37-SNAPSHOT
16:12:11.091 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
16:12:11.091 INFO  TestTransformedLocusWalker - Executing as root@a34d5a30ed3f on Linux v6.11.0-1013-azure amd64
16:12:11.091 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
16:12:11.091 INFO  TestTransformedLocusWalker - Start Date/Time: May 5, 2025 at 4:12:11 PM GMT
16:12:11.091 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.091 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.091 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
16:12:11.091 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
16:12:11.091 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
16:12:11.091 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
16:12:11.091 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
16:12:11.091 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
16:12:11.091 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
16:12:11.091 INFO  TestTransformedLocusWalker - Requester pays: disabled
16:12:11.092 INFO  TestTransformedLocusWalker - Initializing engine
16:12:11.094 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
16:12:11.094 INFO  TestTransformedLocusWalker - Done initializing engine
16:12:11.094 INFO  ProgressMeter - Starting traversal
16:12:11.094 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
16:12:11.110 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
16:12:11.111 INFO  ProgressMeter -              20:1999              0.0                  1001        3753750.0
16:12:11.111 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
16:12:11.111 INFO  TestTransformedLocusWalker - Shutting down engine
[May 5, 2025 at 4:12:11 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
16:12:11.126 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.126 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-4-g6e00a37-SNAPSHOT
16:12:11.126 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
16:12:11.126 INFO  TestTransformedLocusWalker - Executing as root@a34d5a30ed3f on Linux v6.11.0-1013-azure amd64
16:12:11.126 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
16:12:11.126 INFO  TestTransformedLocusWalker - Start Date/Time: May 5, 2025 at 4:12:11 PM GMT
16:12:11.126 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.126 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.126 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
16:12:11.126 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
16:12:11.126 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
16:12:11.126 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
16:12:11.126 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
16:12:11.127 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
16:12:11.127 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
16:12:11.127 INFO  TestTransformedLocusWalker - Requester pays: disabled
16:12:11.127 INFO  TestTransformedLocusWalker - Initializing engine
16:12:11.128 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
16:12:11.129 INFO  TestTransformedLocusWalker - Done initializing engine
16:12:11.129 INFO  ProgressMeter - Starting traversal
16:12:11.129 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
16:12:11.132 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
16:12:11.133 INFO  ProgressMeter -              20:1999              0.0                  1001       15015000.0
16:12:11.133 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
16:12:11.133 INFO  TestTransformedLocusWalker - Shutting down engine
[May 5, 2025 at 4:12:11 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
16:12:11.147 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.147 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-4-g6e00a37-SNAPSHOT
16:12:11.147 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
16:12:11.147 INFO  TestTransformedLocusWalker - Executing as root@a34d5a30ed3f on Linux v6.11.0-1013-azure amd64
16:12:11.147 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
16:12:11.147 INFO  TestTransformedLocusWalker - Start Date/Time: May 5, 2025 at 4:12:11 PM GMT
16:12:11.147 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.147 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.147 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
16:12:11.147 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
16:12:11.147 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
16:12:11.147 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
16:12:11.147 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
16:12:11.147 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
16:12:11.147 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
16:12:11.147 INFO  TestTransformedLocusWalker - Requester pays: disabled
16:12:11.147 INFO  TestTransformedLocusWalker - Initializing engine
16:12:11.149 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
16:12:11.149 INFO  TestTransformedLocusWalker - Done initializing engine
16:12:11.149 INFO  ProgressMeter - Starting traversal
16:12:11.149 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
16:12:11.152 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
16:12:11.152 INFO  ProgressMeter -              20:1999              0.0                  1001       20020000.0
16:12:11.152 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
16:12:11.152 INFO  TestTransformedLocusWalker - Shutting down engine
[May 5, 2025 at 4:12:11 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
16:12:11.167 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.167 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-4-g6e00a37-SNAPSHOT
16:12:11.167 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
16:12:11.167 INFO  TestTransformedLocusWalker - Executing as root@a34d5a30ed3f on Linux v6.11.0-1013-azure amd64
16:12:11.167 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
16:12:11.167 INFO  TestTransformedLocusWalker - Start Date/Time: May 5, 2025 at 4:12:11 PM GMT
16:12:11.167 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.167 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.167 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
16:12:11.167 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
16:12:11.167 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
16:12:11.167 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
16:12:11.167 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
16:12:11.167 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
16:12:11.167 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
16:12:11.167 INFO  TestTransformedLocusWalker - Requester pays: disabled
16:12:11.167 INFO  TestTransformedLocusWalker - Initializing engine
16:12:11.169 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
16:12:11.169 INFO  TestTransformedLocusWalker - Done initializing engine
16:12:11.169 INFO  ProgressMeter - Starting traversal
16:12:11.169 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
16:12:11.173 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
16:12:11.173 INFO  ProgressMeter -              20:1999              0.0                  1001       15015000.0
16:12:11.173 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
16:12:11.173 INFO  TestTransformedLocusWalker - Shutting down engine
[May 5, 2025 at 4:12:11 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
16:12:11.187 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.187 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-4-g6e00a37-SNAPSHOT
16:12:11.187 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
16:12:11.187 INFO  TestTransformedLocusWalker - Executing as root@a34d5a30ed3f on Linux v6.11.0-1013-azure amd64
16:12:11.188 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
16:12:11.188 INFO  TestTransformedLocusWalker - Start Date/Time: May 5, 2025 at 4:12:11 PM GMT
16:12:11.188 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.188 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.188 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
16:12:11.188 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
16:12:11.188 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
16:12:11.188 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
16:12:11.188 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
16:12:11.188 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
16:12:11.188 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
16:12:11.188 INFO  TestTransformedLocusWalker - Requester pays: disabled
16:12:11.188 INFO  TestTransformedLocusWalker - Initializing engine
16:12:11.189 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
16:12:11.189 INFO  TestTransformedLocusWalker - Done initializing engine
16:12:11.189 INFO  ProgressMeter - Starting traversal
16:12:11.189 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
16:12:11.194 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
16:12:11.194 INFO  ProgressMeter -              20:2999              0.0                  2001       24012000.0
16:12:11.194 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
16:12:11.194 INFO  TestTransformedLocusWalker - Shutting down engine
[May 5, 2025 at 4:12:11 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
16:12:11.208 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.208 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-4-g6e00a37-SNAPSHOT
16:12:11.208 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
16:12:11.208 INFO  TestTransformedLocusWalker - Executing as root@a34d5a30ed3f on Linux v6.11.0-1013-azure amd64
16:12:11.208 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
16:12:11.208 INFO  TestTransformedLocusWalker - Start Date/Time: May 5, 2025 at 4:12:11 PM GMT
16:12:11.208 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.208 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.208 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
16:12:11.208 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
16:12:11.208 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
16:12:11.208 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
16:12:11.208 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
16:12:11.208 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
16:12:11.208 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
16:12:11.208 INFO  TestTransformedLocusWalker - Requester pays: disabled
16:12:11.208 INFO  TestTransformedLocusWalker - Initializing engine
16:12:11.210 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
16:12:11.210 INFO  TestTransformedLocusWalker - Done initializing engine
16:12:11.210 INFO  ProgressMeter - Starting traversal
16:12:11.210 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
16:12:11.217 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
16:12:11.217 INFO  ProgressMeter -              20:3999              0.0                  2001       17151428.6
16:12:11.217 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
16:12:11.217 INFO  TestTransformedLocusWalker - Shutting down engine
[May 5, 2025 at 4:12:11 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
16:12:11.237 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.237 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-4-g6e00a37-SNAPSHOT
16:12:11.237 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
16:12:11.237 INFO  TestTransformedLocusWalker - Executing as root@a34d5a30ed3f on Linux v6.11.0-1013-azure amd64
16:12:11.238 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
16:12:11.238 INFO  TestTransformedLocusWalker - Start Date/Time: May 5, 2025 at 4:12:11 PM GMT
16:12:11.238 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.238 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.238 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
16:12:11.238 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
16:12:11.238 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
16:12:11.238 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
16:12:11.238 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
16:12:11.238 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
16:12:11.238 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
16:12:11.238 INFO  TestTransformedLocusWalker - Requester pays: disabled
16:12:11.238 INFO  TestTransformedLocusWalker - Initializing engine
16:12:11.240 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
16:12:11.240 INFO  TestTransformedLocusWalker - Done initializing engine
16:12:11.240 INFO  ProgressMeter - Starting traversal
16:12:11.240 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
16:12:11.245 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
16:12:11.246 INFO  ProgressMeter -              21:3999              0.0                  2001       24012000.0
16:12:11.246 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
16:12:11.246 INFO  TestTransformedLocusWalker - Shutting down engine
[May 5, 2025 at 4:12:11 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
16:12:11.266 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.266 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-4-g6e00a37-SNAPSHOT
16:12:11.266 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
16:12:11.267 INFO  TestTransformedLocusWalker - Executing as root@a34d5a30ed3f on Linux v6.11.0-1013-azure amd64
16:12:11.267 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
16:12:11.267 INFO  TestTransformedLocusWalker - Start Date/Time: May 5, 2025 at 4:12:11 PM GMT
16:12:11.267 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.267 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.267 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
16:12:11.267 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
16:12:11.267 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
16:12:11.267 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
16:12:11.267 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
16:12:11.267 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
16:12:11.267 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
16:12:11.267 INFO  TestTransformedLocusWalker - Requester pays: disabled
16:12:11.267 INFO  TestTransformedLocusWalker - Initializing engine
16:12:11.269 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
16:12:11.269 INFO  TestTransformedLocusWalker - Done initializing engine
16:12:11.269 INFO  ProgressMeter - Starting traversal
16:12:11.269 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
16:12:11.285 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
16:12:11.285 INFO  ProgressMeter -              20:3999              0.0                  2001        7503750.0
16:12:11.285 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
16:12:11.285 INFO  TestTransformedLocusWalker - Shutting down engine
[May 5, 2025 at 4:12:11 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
16:12:11.311 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.311 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-4-g6e00a37-SNAPSHOT
16:12:11.311 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
16:12:11.311 INFO  TestTransformedLocusWalker - Executing as root@a34d5a30ed3f on Linux v6.11.0-1013-azure amd64
16:12:11.311 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
16:12:11.311 INFO  TestTransformedLocusWalker - Start Date/Time: May 5, 2025 at 4:12:11 PM GMT
16:12:11.311 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.311 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.311 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
16:12:11.311 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
16:12:11.312 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
16:12:11.312 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
16:12:11.312 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
16:12:11.312 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
16:12:11.312 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
16:12:11.312 INFO  TestTransformedLocusWalker - Requester pays: disabled
16:12:11.312 INFO  TestTransformedLocusWalker - Initializing engine
16:12:11.313 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
16:12:11.313 INFO  TestTransformedLocusWalker - Done initializing engine
16:12:11.313 INFO  ProgressMeter - Starting traversal
16:12:11.313 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
16:12:11.315 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
16:12:11.315 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
16:12:11.315 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
16:12:11.316 INFO  TestTransformedLocusWalker - Shutting down engine
[May 5, 2025 at 4:12:11 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
16:12:11.336 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.336 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-4-g6e00a37-SNAPSHOT
16:12:11.336 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
16:12:11.336 INFO  TestTransformedLocusWalker - Executing as root@a34d5a30ed3f on Linux v6.11.0-1013-azure amd64
16:12:11.336 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
16:12:11.336 INFO  TestTransformedLocusWalker - Start Date/Time: May 5, 2025 at 4:12:11 PM GMT
16:12:11.336 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.336 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.336 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
16:12:11.336 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
16:12:11.336 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
16:12:11.336 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
16:12:11.336 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
16:12:11.336 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
16:12:11.336 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
16:12:11.336 INFO  TestTransformedLocusWalker - Requester pays: disabled
16:12:11.336 INFO  TestTransformedLocusWalker - Initializing engine
16:12:11.338 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
16:12:11.338 INFO  TestTransformedLocusWalker - Done initializing engine
16:12:11.338 INFO  ProgressMeter - Starting traversal
16:12:11.338 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
16:12:11.340 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
16:12:11.340 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
16:12:11.340 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
16:12:11.340 INFO  TestTransformedLocusWalker - Shutting down engine
[May 5, 2025 at 4:12:11 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
16:12:11.360 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.360 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-4-g6e00a37-SNAPSHOT
16:12:11.360 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
16:12:11.361 INFO  TestTransformedLocusWalker - Executing as root@a34d5a30ed3f on Linux v6.11.0-1013-azure amd64
16:12:11.361 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
16:12:11.361 INFO  TestTransformedLocusWalker - Start Date/Time: May 5, 2025 at 4:12:11 PM GMT
16:12:11.361 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.361 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.361 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
16:12:11.361 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
16:12:11.361 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
16:12:11.361 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
16:12:11.361 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
16:12:11.361 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
16:12:11.361 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
16:12:11.361 INFO  TestTransformedLocusWalker - Requester pays: disabled
16:12:11.361 INFO  TestTransformedLocusWalker - Initializing engine
16:12:11.362 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
16:12:11.363 INFO  TestTransformedLocusWalker - Done initializing engine
16:12:11.363 INFO  ProgressMeter - Starting traversal
16:12:11.363 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
16:12:11.365 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
16:12:11.365 INFO  ProgressMeter -              20:1999              0.0                  1001       30030000.0
16:12:11.365 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
16:12:11.365 INFO  TestTransformedLocusWalker - Shutting down engine
[May 5, 2025 at 4:12:11 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
16:12:11.385 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.385 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-4-g6e00a37-SNAPSHOT
16:12:11.386 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
16:12:11.386 INFO  TestTransformedLocusWalker - Executing as root@a34d5a30ed3f on Linux v6.11.0-1013-azure amd64
16:12:11.386 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
16:12:11.386 INFO  TestTransformedLocusWalker - Start Date/Time: May 5, 2025 at 4:12:11 PM GMT
16:12:11.386 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.386 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.386 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
16:12:11.386 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
16:12:11.386 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
16:12:11.386 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
16:12:11.386 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
16:12:11.386 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
16:12:11.386 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
16:12:11.386 INFO  TestTransformedLocusWalker - Requester pays: disabled
16:12:11.386 INFO  TestTransformedLocusWalker - Initializing engine
16:12:11.388 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
16:12:11.388 INFO  TestTransformedLocusWalker - Done initializing engine
16:12:11.388 INFO  ProgressMeter - Starting traversal
16:12:11.388 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
16:12:11.389 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
16:12:11.389 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
16:12:11.389 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
16:12:11.389 INFO  TestTransformedLocusWalker - Shutting down engine
[May 5, 2025 at 4:12:11 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000
16:12:11.410 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.410 INFO  TestTransformedLocusWalker - The Genome Analysis Toolkit (GATK) v4.6.2.0-4-g6e00a37-SNAPSHOT
16:12:11.410 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
16:12:11.410 INFO  TestTransformedLocusWalker - Executing as root@a34d5a30ed3f on Linux v6.11.0-1013-azure amd64
16:12:11.410 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.12+7-Ubuntu-1ubuntu222.04
16:12:11.410 INFO  TestTransformedLocusWalker - Start Date/Time: May 5, 2025 at 4:12:11 PM GMT
16:12:11.410 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.410 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
16:12:11.410 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
16:12:11.411 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
16:12:11.411 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
16:12:11.411 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
16:12:11.411 INFO  TestTransformedLocusWalker - Deflater: IntelDeflater
16:12:11.411 INFO  TestTransformedLocusWalker - Inflater: IntelInflater
16:12:11.411 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
16:12:11.411 INFO  TestTransformedLocusWalker - Requester pays: disabled
16:12:11.411 INFO  TestTransformedLocusWalker - Initializing engine
16:12:11.412 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
16:12:11.412 INFO  TestTransformedLocusWalker - Done initializing engine
16:12:11.412 INFO  ProgressMeter - Starting traversal
16:12:11.412 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
16:12:11.416 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
16:12:11.416 INFO  ProgressMeter -              20:1999              0.0                  1001       15015000.0
16:12:11.416 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
16:12:11.416 INFO  TestTransformedLocusWalker - Shutting down engine
[May 5, 2025 at 4:12:11 PM GMT] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=1048576000