Class org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest

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

tests
0

failures
0

ignored
0.125s

duration
100%

successful

Tests

Test Duration Result
testIntervalFiltering[0](/count_reads_sorted.bam) 0.013s passed
testIntervalFiltering[1](/count_reads_sorted.cram) 0.015s passed
testPassCounts[0](0) 0.006s passed
testPassCounts[1](1) 0.006s passed
testPassCounts[2](2) 0.005s passed
testPassCounts[3](5) 0.007s passed
testPassCounts[4](25) 0.011s passed
testRejectAttemptToIndexNonIndexableInput[0](/count_reads.bam) 0.010s passed
testRejectAttemptToIndexNonIndexableInput[1](/count_reads.sam) 0.010s passed
testRejectAttemptToIndexNonIndexableInput[2](/count_reads.cram) 0.008s passed
testTwoPass[0](/count_reads.bam) 0.007s passed
testTwoPass[1](/count_reads.sam) 0.012s passed
testTwoPass[2](/count_reads.cram) 0.015s passed

Standard error

19:48:11.905 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.905 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
19:48:11.905 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:48:11.905 INFO  dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
19:48:11.905 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
19:48:11.905 INFO  dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 7:48:11 PM UTC
19:48:11.905 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.905 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.906 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:48:11.906 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:48:11.906 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:48:11.906 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:48:11.906 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
19:48:11.906 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
19:48:11.906 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
19:48:11.906 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
19:48:11.906 INFO  dummyMultiplePassReadWalker - Initializing engine
19:48:11.910 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
19:48:11.910 INFO  dummyMultiplePassReadWalker - Done initializing engine
19:48:11.910 INFO  ProgressMeter - Starting traversal
19:48:11.910 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
19:48:11.912 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.912 INFO  dummyMultiplePassReadWalker - Starting traversal pass 2
19:48:11.913 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.913 INFO  ProgressMeter -             unmapped              0.0                    10         200000.0
19:48:11.913 INFO  ProgressMeter - Traversal complete. Processed 10 total reads in 0.0 minutes.
19:48:11.913 INFO  dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 7:48:11 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
19:48:11.917 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.917 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
19:48:11.917 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:48:11.917 INFO  dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
19:48:11.917 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
19:48:11.917 INFO  dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 7:48:11 PM UTC
19:48:11.917 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.917 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.918 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:48:11.918 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:48:11.918 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:48:11.918 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:48:11.918 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
19:48:11.918 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
19:48:11.918 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
19:48:11.918 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
19:48:11.918 INFO  dummyMultiplePassReadWalker - Initializing engine
19:48:11.921 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
19:48:11.921 INFO  dummyMultiplePassReadWalker - Done initializing engine
19:48:11.921 INFO  ProgressMeter - Starting traversal
19:48:11.921 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
19:48:11.926 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.926 INFO  dummyMultiplePassReadWalker - Starting traversal pass 2
19:48:11.927 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.927 INFO  ProgressMeter -             unmapped              0.0                    10         100000.0
19:48:11.927 INFO  ProgressMeter - Traversal complete. Processed 10 total reads in 0.0 minutes.
19:48:11.927 INFO  dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 7:48:11 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
19:48:11.934 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.934 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
19:48:11.934 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:48:11.934 INFO  dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
19:48:11.934 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
19:48:11.934 INFO  dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 7:48:11 PM UTC
19:48:11.934 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.934 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.934 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:48:11.934 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:48:11.934 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:48:11.934 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:48:11.934 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
19:48:11.934 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
19:48:11.934 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
19:48:11.934 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
19:48:11.934 INFO  dummyMultiplePassReadWalker - Initializing engine
19:48:11.935 INFO  dummyMultiplePassReadWalker - Done initializing engine
19:48:11.935 INFO  ProgressMeter - Starting traversal
19:48:11.935 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
19:48:11.935 INFO  ProgressMeter -             unmapped              0.0                     0              NaN
19:48:11.935 INFO  ProgressMeter - Traversal complete. Processed 0 total reads in 0.0 minutes.
19:48:11.935 INFO  dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 7:48:11 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
19:48:11.939 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.939 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
19:48:11.939 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:48:11.939 INFO  dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
19:48:11.939 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
19:48:11.939 INFO  dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 7:48:11 PM UTC
19:48:11.939 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.939 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.939 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:48:11.939 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:48:11.939 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:48:11.939 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:48:11.939 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
19:48:11.939 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
19:48:11.939 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
19:48:11.939 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
19:48:11.939 INFO  dummyMultiplePassReadWalker - Initializing engine
19:48:11.940 INFO  dummyMultiplePassReadWalker - Done initializing engine
19:48:11.940 INFO  ProgressMeter - Starting traversal
19:48:11.940 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
19:48:11.940 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.940 INFO  ProgressMeter -             unmapped              0.0                     8         Infinity
19:48:11.940 INFO  ProgressMeter - Traversal complete. Processed 8 total reads in 0.0 minutes.
19:48:11.940 INFO  dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 7:48:11 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
19:48:11.944 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.944 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
19:48:11.944 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:48:11.944 INFO  dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
19:48:11.944 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
19:48:11.944 INFO  dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 7:48:11 PM UTC
19:48:11.944 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.944 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.945 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:48:11.945 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:48:11.945 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:48:11.945 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:48:11.945 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
19:48:11.945 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
19:48:11.945 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
19:48:11.945 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
19:48:11.945 INFO  dummyMultiplePassReadWalker - Initializing engine
19:48:11.945 INFO  dummyMultiplePassReadWalker - Done initializing engine
19:48:11.945 INFO  ProgressMeter - Starting traversal
19:48:11.945 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
19:48:11.946 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.946 INFO  dummyMultiplePassReadWalker - Starting traversal pass 2
19:48:11.946 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.946 INFO  ProgressMeter -             unmapped              0.0                    16         960000.0
19:48:11.946 INFO  ProgressMeter - Traversal complete. Processed 16 total reads in 0.0 minutes.
19:48:11.946 INFO  dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 7:48:11 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
19:48:11.950 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.950 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
19:48:11.950 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:48:11.950 INFO  dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
19:48:11.950 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
19:48:11.950 INFO  dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 7:48:11 PM UTC
19:48:11.950 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.950 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.950 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:48:11.950 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:48:11.950 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:48:11.950 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:48:11.950 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
19:48:11.950 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
19:48:11.950 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
19:48:11.950 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
19:48:11.950 INFO  dummyMultiplePassReadWalker - Initializing engine
19:48:11.951 INFO  dummyMultiplePassReadWalker - Done initializing engine
19:48:11.951 INFO  ProgressMeter - Starting traversal
19:48:11.951 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
19:48:11.951 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.951 INFO  dummyMultiplePassReadWalker - Starting traversal pass 2
19:48:11.951 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.951 INFO  dummyMultiplePassReadWalker - Starting traversal pass 3
19:48:11.952 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.952 INFO  dummyMultiplePassReadWalker - Starting traversal pass 4
19:48:11.952 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.952 INFO  dummyMultiplePassReadWalker - Starting traversal pass 5
19:48:11.953 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.953 INFO  ProgressMeter -             unmapped              0.0                    40        1200000.0
19:48:11.953 INFO  ProgressMeter - Traversal complete. Processed 40 total reads in 0.0 minutes.
19:48:11.953 INFO  dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 7:48:11 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
19:48:11.957 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.957 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
19:48:11.957 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:48:11.957 INFO  dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
19:48:11.957 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
19:48:11.957 INFO  dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 7:48:11 PM UTC
19:48:11.957 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.957 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.957 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:48:11.957 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:48:11.957 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:48:11.957 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:48:11.957 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
19:48:11.957 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
19:48:11.957 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
19:48:11.957 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
19:48:11.957 INFO  dummyMultiplePassReadWalker - Initializing engine
19:48:11.958 INFO  dummyMultiplePassReadWalker - Done initializing engine
19:48:11.958 INFO  ProgressMeter - Starting traversal
19:48:11.958 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
19:48:11.958 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.958 INFO  dummyMultiplePassReadWalker - Starting traversal pass 2
19:48:11.958 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.958 INFO  dummyMultiplePassReadWalker - Starting traversal pass 3
19:48:11.959 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.959 INFO  dummyMultiplePassReadWalker - Starting traversal pass 4
19:48:11.959 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.959 INFO  dummyMultiplePassReadWalker - Starting traversal pass 5
19:48:11.959 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.959 INFO  dummyMultiplePassReadWalker - Starting traversal pass 6
19:48:11.959 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.959 INFO  dummyMultiplePassReadWalker - Starting traversal pass 7
19:48:11.960 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.960 INFO  dummyMultiplePassReadWalker - Starting traversal pass 8
19:48:11.960 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.960 INFO  dummyMultiplePassReadWalker - Starting traversal pass 9
19:48:11.960 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.960 INFO  dummyMultiplePassReadWalker - Starting traversal pass 10
19:48:11.960 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.960 INFO  dummyMultiplePassReadWalker - Starting traversal pass 11
19:48:11.961 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.961 INFO  dummyMultiplePassReadWalker - Starting traversal pass 12
19:48:11.961 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.961 INFO  dummyMultiplePassReadWalker - Starting traversal pass 13
19:48:11.961 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.961 INFO  dummyMultiplePassReadWalker - Starting traversal pass 14
19:48:11.961 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.961 INFO  dummyMultiplePassReadWalker - Starting traversal pass 15
19:48:11.961 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.961 INFO  dummyMultiplePassReadWalker - Starting traversal pass 16
19:48:11.962 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.962 INFO  dummyMultiplePassReadWalker - Starting traversal pass 17
19:48:11.962 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.962 INFO  dummyMultiplePassReadWalker - Starting traversal pass 18
19:48:11.962 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.962 INFO  dummyMultiplePassReadWalker - Starting traversal pass 19
19:48:11.962 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.962 INFO  dummyMultiplePassReadWalker - Starting traversal pass 20
19:48:11.963 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.963 INFO  dummyMultiplePassReadWalker - Starting traversal pass 21
19:48:11.963 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.963 INFO  dummyMultiplePassReadWalker - Starting traversal pass 22
19:48:11.963 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.963 INFO  dummyMultiplePassReadWalker - Starting traversal pass 23
19:48:11.963 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.963 INFO  dummyMultiplePassReadWalker - Starting traversal pass 24
19:48:11.964 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.964 INFO  dummyMultiplePassReadWalker - Starting traversal pass 25
19:48:11.964 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:11.964 INFO  ProgressMeter -             unmapped              0.0                   200        2000000.0
19:48:11.964 INFO  ProgressMeter - Traversal complete. Processed 200 total reads in 0.0 minutes.
19:48:11.964 INFO  dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 7:48:11 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
19:48:11.970 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.970 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
19:48:11.970 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:48:11.970 INFO  dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
19:48:11.970 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
19:48:11.970 INFO  dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 7:48:11 PM UTC
19:48:11.970 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.970 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.971 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:48:11.971 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:48:11.971 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:48:11.971 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:48:11.971 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
19:48:11.971 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
19:48:11.971 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
19:48:11.971 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
19:48:11.971 INFO  dummyMultiplePassReadWalker - Initializing engine
19:48:11.974 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
19:48:11.975 INFO  dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 7:48:11 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
19:48:11.981 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.981 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
19:48:11.981 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:48:11.981 INFO  dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
19:48:11.981 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
19:48:11.981 INFO  dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 7:48:11 PM UTC
19:48:11.981 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.981 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.981 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:48:11.981 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:48:11.981 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:48:11.981 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:48:11.981 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
19:48:11.981 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
19:48:11.981 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
19:48:11.981 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
19:48:11.981 INFO  dummyMultiplePassReadWalker - Initializing engine
19:48:11.985 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
19:48:11.985 INFO  dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 7:48:11 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
19:48:11.991 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.991 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
19:48:11.991 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:48:11.991 INFO  dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
19:48:11.991 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
19:48:11.991 INFO  dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 7:48:11 PM UTC
19:48:11.991 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.991 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.991 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:48:11.991 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:48:11.991 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:48:11.991 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:48:11.991 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
19:48:11.991 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
19:48:11.991 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
19:48:11.991 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
19:48:11.991 INFO  dummyMultiplePassReadWalker - Initializing engine
19:48:11.993 INFO  IntervalArgumentCollection - Processing 31 bp from intervals
19:48:11.994 INFO  dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 7:48:11 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
19:48:11.998 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.998 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
19:48:11.998 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:48:11.998 INFO  dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
19:48:11.998 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
19:48:11.998 INFO  dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 7:48:11 PM UTC
19:48:11.998 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.998 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:11.998 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:48:11.998 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:48:11.998 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:48:11.998 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:48:11.998 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
19:48:11.998 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
19:48:11.998 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
19:48:11.998 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
19:48:11.998 INFO  dummyMultiplePassReadWalker - Initializing engine
19:48:12.000 INFO  dummyMultiplePassReadWalker - Done initializing engine
19:48:12.000 INFO  ProgressMeter - Starting traversal
19:48:12.000 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
19:48:12.000 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:12.000 INFO  dummyMultiplePassReadWalker - Starting traversal pass 2
19:48:12.000 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:12.000 INFO  ProgressMeter -             unmapped              0.0                    16         Infinity
19:48:12.001 INFO  ProgressMeter - Traversal complete. Processed 16 total reads in 0.0 minutes.
19:48:12.001 INFO  dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 7:48:12 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
19:48:12.007 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:12.007 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
19:48:12.007 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:48:12.007 INFO  dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
19:48:12.007 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
19:48:12.007 INFO  dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 7:48:12 PM UTC
19:48:12.007 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:12.007 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:12.007 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:48:12.007 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:48:12.007 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:48:12.007 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:48:12.007 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
19:48:12.007 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
19:48:12.007 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
19:48:12.007 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
19:48:12.007 INFO  dummyMultiplePassReadWalker - Initializing engine
19:48:12.008 INFO  dummyMultiplePassReadWalker - Done initializing engine
19:48:12.008 INFO  ProgressMeter - Starting traversal
19:48:12.009 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
19:48:12.011 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:12.012 INFO  dummyMultiplePassReadWalker - Starting traversal pass 2
19:48:12.012 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:12.013 INFO  ProgressMeter -             unmapped              0.0                    16         320000.0
19:48:12.013 INFO  ProgressMeter - Traversal complete. Processed 16 total reads in 0.0 minutes.
19:48:12.013 INFO  dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 7:48:12 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
19:48:12.019 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:12.019 INFO  dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
19:48:12.019 INFO  dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
19:48:12.019 INFO  dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
19:48:12.019 INFO  dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
19:48:12.019 INFO  dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 7:48:12 PM UTC
19:48:12.019 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:12.019 INFO  dummyMultiplePassReadWalker - ------------------------------------------------------------
19:48:12.019 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
19:48:12.019 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
19:48:12.019 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
19:48:12.019 INFO  dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
19:48:12.019 INFO  dummyMultiplePassReadWalker - Deflater: IntelDeflater
19:48:12.019 INFO  dummyMultiplePassReadWalker - Inflater: IntelInflater
19:48:12.019 INFO  dummyMultiplePassReadWalker - GCS max retries/reopens: 20
19:48:12.019 INFO  dummyMultiplePassReadWalker - Requester pays: disabled
19:48:12.019 INFO  dummyMultiplePassReadWalker - Initializing engine
19:48:12.021 INFO  dummyMultiplePassReadWalker - Done initializing engine
19:48:12.021 INFO  ProgressMeter - Starting traversal
19:48:12.021 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Reads Processed     Reads/Minute
19:48:12.024 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:12.024 INFO  dummyMultiplePassReadWalker - Starting traversal pass 2
19:48:12.027 INFO  dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter 

19:48:12.027 INFO  ProgressMeter -             unmapped              0.0                    16         160000.0
19:48:12.027 INFO  ProgressMeter - Traversal complete. Processed 16 total reads in 0.0 minutes.
19:48:12.027 INFO  dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 7:48:12 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600