Class org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest

all > org.broadinstitute.hellbender.engine > MultiplePassReadWalkerUnitTest
tests
failures
ignored
0.165s
duration
100%
successful
Tests
Standard error
Tests

Test	Duration	Result
testIntervalFiltering[0](/count_reads_sorted.bam)	0.016s	passed
testIntervalFiltering[1](/count_reads_sorted.cram)	0.021s	passed
testPassCounts[0](0)	0.009s	passed
testPassCounts[1](1)	0.007s	passed
testPassCounts[2](2)	0.008s	passed
testPassCounts[3](5)	0.009s	passed
testPassCounts[4](25)	0.014s	passed
testRejectAttemptToIndexNonIndexableInput[0](/count_reads.bam)	0.014s	passed
testRejectAttemptToIndexNonIndexableInput[1](/count_reads.sam)	0.012s	passed
testRejectAttemptToIndexNonIndexableInput[2](/count_reads.cram)	0.013s	passed
testTwoPass[0](/count_reads.bam)	0.011s	passed
testTwoPass[1](/count_reads.sam)	0.014s	passed
testTwoPass[2](/count_reads.cram)	0.017s	passed
Standard error

14:51:05.154 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.154 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
14:51:05.154 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
14:51:05.154 INFO  dummyMultiplePassReadWalker - Executing as runner@runnervmnay03 on Linux v6.14.0-1017-azure amd64
14:51:05.154 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
14:51:05.154 INFO  dummyMultiplePassReadWalker - Start Date/Time: March 4, 2026 at 2:51:05 PM UTC
14:51:05.154 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.154 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.155 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
14:51:05.155 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
14:51:05.155 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
14:51:05.155 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
14:51:05.155 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
14:51:05.155 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
14:51:05.155 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
14:51:05.155 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
14:51:05.155 INFO  dummyMultiplePassReadWalker - Initializing engine
14:51:05.159 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
14:51:05.160 INFO  dummyMultiplePassReadWalker - Done initializing engine
14:51:05.160 INFO  ProgressMeter - Starting traversal
14:51:05.160 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
14:51:05.162 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.163 INFO  dummyMultiplePassReadWalker - Starting traversal pass 2
14:51:05.163 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.163 INFO  ProgressMeter -             unmapped              0.0                    10         200000.0
14:51:05.163 INFO  ProgressMeter - Traversal complete. Processed 10 total reads in 0.0 minutes.
14:51:05.163 INFO  dummyMultiplePassReadWalker - Shutting down engine
[March 4, 2026 at 2:51:05 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
14:51:05.171 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.171 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
14:51:05.171 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
14:51:05.171 INFO  dummyMultiplePassReadWalker - Executing as runner@runnervmnay03 on Linux v6.14.0-1017-azure amd64
14:51:05.171 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
14:51:05.171 INFO  dummyMultiplePassReadWalker - Start Date/Time: March 4, 2026 at 2:51:05 PM UTC
14:51:05.171 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.171 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.171 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
14:51:05.171 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
14:51:05.171 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
14:51:05.171 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
14:51:05.171 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
14:51:05.171 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
14:51:05.171 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
14:51:05.171 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
14:51:05.171 INFO  dummyMultiplePassReadWalker - Initializing engine
14:51:05.176 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
14:51:05.176 INFO  dummyMultiplePassReadWalker - Done initializing engine
14:51:05.176 INFO  ProgressMeter - Starting traversal
14:51:05.177 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
14:51:05.182 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.183 INFO  dummyMultiplePassReadWalker - Starting traversal pass 2
14:51:05.184 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.185 INFO  ProgressMeter -             unmapped              0.0                    10          75000.0
14:51:05.185 INFO  ProgressMeter - Traversal complete. Processed 10 total reads in 0.0 minutes.
14:51:05.185 INFO  dummyMultiplePassReadWalker - Shutting down engine
[March 4, 2026 at 2:51:05 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
14:51:05.193 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.193 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
14:51:05.193 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
14:51:05.193 INFO  dummyMultiplePassReadWalker - Executing as runner@runnervmnay03 on Linux v6.14.0-1017-azure amd64
14:51:05.193 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
14:51:05.193 INFO  dummyMultiplePassReadWalker - Start Date/Time: March 4, 2026 at 2:51:05 PM UTC
14:51:05.193 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.193 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.193 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
14:51:05.193 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
14:51:05.193 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
14:51:05.193 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
14:51:05.193 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
14:51:05.193 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
14:51:05.193 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
14:51:05.193 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
14:51:05.193 INFO  dummyMultiplePassReadWalker - Initializing engine
14:51:05.194 INFO  dummyMultiplePassReadWalker - Done initializing engine
14:51:05.194 INFO  ProgressMeter - Starting traversal
14:51:05.194 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
14:51:05.194 INFO  ProgressMeter -             unmapped              0.0                     0              NaN
14:51:05.194 INFO  ProgressMeter - Traversal complete. Processed 0 total reads in 0.0 minutes.
14:51:05.194 INFO  dummyMultiplePassReadWalker - Shutting down engine
[March 4, 2026 at 2:51:05 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
14:51:05.200 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.200 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
14:51:05.200 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
14:51:05.200 INFO  dummyMultiplePassReadWalker - Executing as runner@runnervmnay03 on Linux v6.14.0-1017-azure amd64
14:51:05.200 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
14:51:05.200 INFO  dummyMultiplePassReadWalker - Start Date/Time: March 4, 2026 at 2:51:05 PM UTC
14:51:05.200 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.200 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.200 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
14:51:05.200 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
14:51:05.200 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
14:51:05.200 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
14:51:05.200 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
14:51:05.200 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
14:51:05.200 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
14:51:05.200 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
14:51:05.200 INFO  dummyMultiplePassReadWalker - Initializing engine
14:51:05.201 INFO  dummyMultiplePassReadWalker - Done initializing engine
14:51:05.201 INFO  ProgressMeter - Starting traversal
14:51:05.201 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
14:51:05.202 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.202 INFO  ProgressMeter -             unmapped              0.0                     8         480000.0
14:51:05.202 INFO  ProgressMeter - Traversal complete. Processed 8 total reads in 0.0 minutes.
14:51:05.202 INFO  dummyMultiplePassReadWalker - Shutting down engine
[March 4, 2026 at 2:51:05 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
14:51:05.207 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.207 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
14:51:05.207 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
14:51:05.207 INFO  dummyMultiplePassReadWalker - Executing as runner@runnervmnay03 on Linux v6.14.0-1017-azure amd64
14:51:05.207 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
14:51:05.207 INFO  dummyMultiplePassReadWalker - Start Date/Time: March 4, 2026 at 2:51:05 PM UTC
14:51:05.207 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.207 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.207 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
14:51:05.207 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
14:51:05.207 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
14:51:05.207 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
14:51:05.207 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
14:51:05.207 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
14:51:05.207 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
14:51:05.207 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
14:51:05.207 INFO  dummyMultiplePassReadWalker - Initializing engine
14:51:05.208 INFO  dummyMultiplePassReadWalker - Done initializing engine
14:51:05.208 INFO  ProgressMeter - Starting traversal
14:51:05.208 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
14:51:05.209 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.209 INFO  dummyMultiplePassReadWalker - Starting traversal pass 2
14:51:05.209 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.209 INFO  ProgressMeter -             unmapped              0.0                    16         960000.0
14:51:05.209 INFO  ProgressMeter - Traversal complete. Processed 16 total reads in 0.0 minutes.
14:51:05.209 INFO  dummyMultiplePassReadWalker - Shutting down engine
[March 4, 2026 at 2:51:05 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
14:51:05.215 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.216 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
14:51:05.216 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
14:51:05.216 INFO  dummyMultiplePassReadWalker - Executing as runner@runnervmnay03 on Linux v6.14.0-1017-azure amd64
14:51:05.216 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
14:51:05.216 INFO  dummyMultiplePassReadWalker - Start Date/Time: March 4, 2026 at 2:51:05 PM UTC
14:51:05.216 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.216 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.216 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
14:51:05.216 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
14:51:05.216 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
14:51:05.216 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
14:51:05.216 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
14:51:05.216 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
14:51:05.216 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
14:51:05.216 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
14:51:05.216 INFO  dummyMultiplePassReadWalker - Initializing engine
14:51:05.217 INFO  dummyMultiplePassReadWalker - Done initializing engine
14:51:05.217 INFO  ProgressMeter - Starting traversal
14:51:05.217 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
14:51:05.217 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.217 INFO  dummyMultiplePassReadWalker - Starting traversal pass 2
14:51:05.218 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.218 INFO  dummyMultiplePassReadWalker - Starting traversal pass 3
14:51:05.218 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.218 INFO  dummyMultiplePassReadWalker - Starting traversal pass 4
14:51:05.218 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.218 INFO  dummyMultiplePassReadWalker - Starting traversal pass 5
14:51:05.218 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.219 INFO  ProgressMeter -             unmapped              0.0                    40        1200000.0
14:51:05.219 INFO  ProgressMeter - Traversal complete. Processed 40 total reads in 0.0 minutes.
14:51:05.219 INFO  dummyMultiplePassReadWalker - Shutting down engine
[March 4, 2026 at 2:51:05 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
14:51:05.225 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.225 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
14:51:05.225 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
14:51:05.225 INFO  dummyMultiplePassReadWalker - Executing as runner@runnervmnay03 on Linux v6.14.0-1017-azure amd64
14:51:05.225 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
14:51:05.225 INFO  dummyMultiplePassReadWalker - Start Date/Time: March 4, 2026 at 2:51:05 PM UTC
14:51:05.225 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.225 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.225 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
14:51:05.225 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
14:51:05.225 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
14:51:05.225 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
14:51:05.225 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
14:51:05.225 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
14:51:05.225 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
14:51:05.225 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
14:51:05.225 INFO  dummyMultiplePassReadWalker - Initializing engine
14:51:05.225 INFO  dummyMultiplePassReadWalker - Done initializing engine
14:51:05.225 INFO  ProgressMeter - Starting traversal
14:51:05.225 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
14:51:05.226 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.226 INFO  dummyMultiplePassReadWalker - Starting traversal pass 2
14:51:05.226 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.226 INFO  dummyMultiplePassReadWalker - Starting traversal pass 3
14:51:05.226 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.226 INFO  dummyMultiplePassReadWalker - Starting traversal pass 4
14:51:05.227 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.227 INFO  dummyMultiplePassReadWalker - Starting traversal pass 5
14:51:05.227 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.227 INFO  dummyMultiplePassReadWalker - Starting traversal pass 6
14:51:05.227 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.227 INFO  dummyMultiplePassReadWalker - Starting traversal pass 7
14:51:05.228 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.228 INFO  dummyMultiplePassReadWalker - Starting traversal pass 8
14:51:05.228 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.228 INFO  dummyMultiplePassReadWalker - Starting traversal pass 9
14:51:05.228 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.228 INFO  dummyMultiplePassReadWalker - Starting traversal pass 10
14:51:05.228 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.228 INFO  dummyMultiplePassReadWalker - Starting traversal pass 11
14:51:05.229 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.229 INFO  dummyMultiplePassReadWalker - Starting traversal pass 12
14:51:05.229 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.229 INFO  dummyMultiplePassReadWalker - Starting traversal pass 13
14:51:05.229 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.229 INFO  dummyMultiplePassReadWalker - Starting traversal pass 14
14:51:05.229 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.229 INFO  dummyMultiplePassReadWalker - Starting traversal pass 15
14:51:05.230 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.230 INFO  dummyMultiplePassReadWalker - Starting traversal pass 16
14:51:05.230 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.230 INFO  dummyMultiplePassReadWalker - Starting traversal pass 17
14:51:05.230 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.230 INFO  dummyMultiplePassReadWalker - Starting traversal pass 18
14:51:05.230 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.230 INFO  dummyMultiplePassReadWalker - Starting traversal pass 19
14:51:05.231 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.231 INFO  dummyMultiplePassReadWalker - Starting traversal pass 20
14:51:05.231 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.231 INFO  dummyMultiplePassReadWalker - Starting traversal pass 21
14:51:05.231 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.231 INFO  dummyMultiplePassReadWalker - Starting traversal pass 22
14:51:05.231 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.232 INFO  dummyMultiplePassReadWalker - Starting traversal pass 23
14:51:05.232 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.232 INFO  dummyMultiplePassReadWalker - Starting traversal pass 24
14:51:05.232 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.232 INFO  dummyMultiplePassReadWalker - Starting traversal pass 25
14:51:05.232 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.232 INFO  ProgressMeter -             unmapped              0.0                   200        1714285.7
14:51:05.232 INFO  ProgressMeter - Traversal complete. Processed 200 total reads in 0.0 minutes.
14:51:05.232 INFO  dummyMultiplePassReadWalker - Shutting down engine
[March 4, 2026 at 2:51:05 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
14:51:05.242 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.242 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
14:51:05.242 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
14:51:05.242 INFO  dummyMultiplePassReadWalker - Executing as runner@runnervmnay03 on Linux v6.14.0-1017-azure amd64
14:51:05.242 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
14:51:05.242 INFO  dummyMultiplePassReadWalker - Start Date/Time: March 4, 2026 at 2:51:05 PM UTC
14:51:05.242 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.242 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.242 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
14:51:05.242 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
14:51:05.242 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
14:51:05.242 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
14:51:05.242 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
14:51:05.242 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
14:51:05.242 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
14:51:05.242 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
14:51:05.242 INFO  dummyMultiplePassReadWalker - Initializing engine
14:51:05.246 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
14:51:05.247 INFO  dummyMultiplePassReadWalker - Shutting down engine
[March 4, 2026 at 2:51:05 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
14:51:05.255 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.255 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
14:51:05.255 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
14:51:05.255 INFO  dummyMultiplePassReadWalker - Executing as runner@runnervmnay03 on Linux v6.14.0-1017-azure amd64
14:51:05.255 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
14:51:05.255 INFO  dummyMultiplePassReadWalker - Start Date/Time: March 4, 2026 at 2:51:05 PM UTC
14:51:05.255 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.255 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.255 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
14:51:05.255 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
14:51:05.255 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
14:51:05.255 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
14:51:05.255 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
14:51:05.255 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
14:51:05.255 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
14:51:05.255 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
14:51:05.255 INFO  dummyMultiplePassReadWalker - Initializing engine
14:51:05.260 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
14:51:05.260 INFO  dummyMultiplePassReadWalker - Shutting down engine
[March 4, 2026 at 2:51:05 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
14:51:05.269 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.269 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
14:51:05.269 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
14:51:05.269 INFO  dummyMultiplePassReadWalker - Executing as runner@runnervmnay03 on Linux v6.14.0-1017-azure amd64
14:51:05.269 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
14:51:05.269 INFO  dummyMultiplePassReadWalker - Start Date/Time: March 4, 2026 at 2:51:05 PM UTC
14:51:05.269 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.269 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.269 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
14:51:05.269 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
14:51:05.269 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
14:51:05.269 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
14:51:05.269 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
14:51:05.269 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
14:51:05.269 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
14:51:05.269 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
14:51:05.269 INFO  dummyMultiplePassReadWalker - Initializing engine
14:51:05.273 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
14:51:05.273 INFO  dummyMultiplePassReadWalker - Shutting down engine
[March 4, 2026 at 2:51:05 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
14:51:05.282 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.282 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
14:51:05.282 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
14:51:05.282 INFO  dummyMultiplePassReadWalker - Executing as runner@runnervmnay03 on Linux v6.14.0-1017-azure amd64
14:51:05.282 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
14:51:05.282 INFO  dummyMultiplePassReadWalker - Start Date/Time: March 4, 2026 at 2:51:05 PM UTC
14:51:05.282 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.282 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.283 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
14:51:05.283 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
14:51:05.283 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
14:51:05.283 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
14:51:05.283 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
14:51:05.283 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
14:51:05.283 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
14:51:05.283 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
14:51:05.283 INFO  dummyMultiplePassReadWalker - Initializing engine
14:51:05.284 INFO  dummyMultiplePassReadWalker - Done initializing engine
14:51:05.284 INFO  ProgressMeter - Starting traversal
14:51:05.284 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
14:51:05.285 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.285 INFO  dummyMultiplePassReadWalker - Starting traversal pass 2
14:51:05.285 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.285 INFO  ProgressMeter -             unmapped              0.0                    16         960000.0
14:51:05.285 INFO  ProgressMeter - Traversal complete. Processed 16 total reads in 0.0 minutes.
14:51:05.285 INFO  dummyMultiplePassReadWalker - Shutting down engine
[March 4, 2026 at 2:51:05 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
14:51:05.293 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.293 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
14:51:05.293 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
14:51:05.293 INFO  dummyMultiplePassReadWalker - Executing as runner@runnervmnay03 on Linux v6.14.0-1017-azure amd64
14:51:05.293 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
14:51:05.293 INFO  dummyMultiplePassReadWalker - Start Date/Time: March 4, 2026 at 2:51:05 PM UTC
14:51:05.293 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.293 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.293 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
14:51:05.293 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
14:51:05.293 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
14:51:05.293 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
14:51:05.293 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
14:51:05.293 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
14:51:05.293 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
14:51:05.293 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
14:51:05.293 INFO  dummyMultiplePassReadWalker - Initializing engine
14:51:05.295 INFO  dummyMultiplePassReadWalker - Done initializing engine
14:51:05.295 INFO  ProgressMeter - Starting traversal
14:51:05.295 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
14:51:05.298 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.299 INFO  dummyMultiplePassReadWalker - Starting traversal pass 2
14:51:05.299 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.300 INFO  ProgressMeter -             unmapped              0.0                    16         240000.0
14:51:05.300 INFO  ProgressMeter - Traversal complete. Processed 16 total reads in 0.0 minutes.
14:51:05.300 INFO  dummyMultiplePassReadWalker - Shutting down engine
[March 4, 2026 at 2:51:05 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
14:51:05.308 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.308 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
14:51:05.308 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
14:51:05.308 INFO  dummyMultiplePassReadWalker - Executing as runner@runnervmnay03 on Linux v6.14.0-1017-azure amd64
14:51:05.308 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
14:51:05.308 INFO  dummyMultiplePassReadWalker - Start Date/Time: March 4, 2026 at 2:51:05 PM UTC
14:51:05.308 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.308 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
14:51:05.308 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
14:51:05.308 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
14:51:05.308 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
14:51:05.308 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
14:51:05.308 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
14:51:05.308 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
14:51:05.308 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
14:51:05.308 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
14:51:05.308 INFO  dummyMultiplePassReadWalker - Initializing engine
14:51:05.310 INFO  dummyMultiplePassReadWalker - Done initializing engine
14:51:05.310 INFO  ProgressMeter - Starting traversal
14:51:05.310 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
14:51:05.314 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.314 INFO  dummyMultiplePassReadWalker - Starting traversal pass 2
14:51:05.317 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

14:51:05.317 INFO  ProgressMeter -             unmapped              0.0                    16         137142.9
14:51:05.317 INFO  ProgressMeter - Traversal complete. Processed 16 total reads in 0.0 minutes.
14:51:05.317 INFO  dummyMultiplePassReadWalker - Shutting down engine
[March 4, 2026 at 2:51:05 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600