Class org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest
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) |
0.007s |
passed |
testPassCounts[1](1) |
0.005s |
passed |
testPassCounts[2](2) |
0.006s |
passed |
testPassCounts[3](5) |
0.006s |
passed |
testPassCounts[4](25) |
0.012s |
passed |
testRejectAttemptToIndexNonIndexableInput[0](/count_reads.bam) |
0.010s |
passed |
testRejectAttemptToIndexNonIndexableInput[1](/count_reads.sam) |
0.008s |
passed |
testRejectAttemptToIndexNonIndexableInput[2](/count_reads.cram) |
0.007s |
passed |
testTwoPass[0](/count_reads.bam) |
0.008s |
passed |
testTwoPass[1](/count_reads.sam) |
0.013s |
passed |
testTwoPass[2](/count_reads.cram) |
0.014s |
passed |
Standard error
20:33:07.926 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.926 INFO dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
20:33:07.926 INFO dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:33:07.926 INFO dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
20:33:07.926 INFO dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
20:33:07.926 INFO dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 8:33:07 PM UTC
20:33:07.926 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.926 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.927 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:33:07.927 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:33:07.927 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:33:07.927 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:33:07.927 INFO dummyMultiplePassReadWalker - Deflater: IntelDeflater
20:33:07.927 INFO dummyMultiplePassReadWalker - Inflater: IntelInflater
20:33:07.927 INFO dummyMultiplePassReadWalker - GCS max retries/reopens: 20
20:33:07.927 INFO dummyMultiplePassReadWalker - Requester pays: disabled
20:33:07.927 INFO dummyMultiplePassReadWalker - Initializing engine
20:33:07.930 INFO IntervalArgumentCollection - Processing 31 bp from intervals
20:33:07.931 INFO dummyMultiplePassReadWalker - Done initializing engine
20:33:07.931 INFO ProgressMeter - Starting traversal
20:33:07.931 INFO ProgressMeter - Current Locus Elapsed Minutes Reads Processed Reads/Minute
20:33:07.933 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.933 INFO dummyMultiplePassReadWalker - Starting traversal pass 2
20:33:07.933 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.934 INFO ProgressMeter - unmapped 0.0 10 200000.0
20:33:07.934 INFO ProgressMeter - Traversal complete. Processed 10 total reads in 0.0 minutes.
20:33:07.934 INFO dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 8:33:07 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
20:33:07.938 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.938 INFO dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
20:33:07.938 INFO dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:33:07.938 INFO dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
20:33:07.938 INFO dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
20:33:07.938 INFO dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 8:33:07 PM UTC
20:33:07.938 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.938 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.938 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:33:07.938 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:33:07.938 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:33:07.938 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:33:07.939 INFO dummyMultiplePassReadWalker - Deflater: IntelDeflater
20:33:07.939 INFO dummyMultiplePassReadWalker - Inflater: IntelInflater
20:33:07.939 INFO dummyMultiplePassReadWalker - GCS max retries/reopens: 20
20:33:07.939 INFO dummyMultiplePassReadWalker - Requester pays: disabled
20:33:07.939 INFO dummyMultiplePassReadWalker - Initializing engine
20:33:07.942 INFO IntervalArgumentCollection - Processing 31 bp from intervals
20:33:07.942 INFO dummyMultiplePassReadWalker - Done initializing engine
20:33:07.942 INFO ProgressMeter - Starting traversal
20:33:07.942 INFO ProgressMeter - Current Locus Elapsed Minutes Reads Processed Reads/Minute
20:33:07.947 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.947 INFO dummyMultiplePassReadWalker - Starting traversal pass 2
20:33:07.948 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.948 INFO ProgressMeter - unmapped 0.0 10 100000.0
20:33:07.948 INFO ProgressMeter - Traversal complete. Processed 10 total reads in 0.0 minutes.
20:33:07.948 INFO dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 8:33:07 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
20:33:07.954 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.954 INFO dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
20:33:07.954 INFO dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:33:07.954 INFO dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
20:33:07.954 INFO dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
20:33:07.954 INFO dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 8:33:07 PM UTC
20:33:07.954 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.954 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.954 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:33:07.954 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:33:07.954 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:33:07.954 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:33:07.954 INFO dummyMultiplePassReadWalker - Deflater: IntelDeflater
20:33:07.954 INFO dummyMultiplePassReadWalker - Inflater: IntelInflater
20:33:07.954 INFO dummyMultiplePassReadWalker - GCS max retries/reopens: 20
20:33:07.954 INFO dummyMultiplePassReadWalker - Requester pays: disabled
20:33:07.954 INFO dummyMultiplePassReadWalker - Initializing engine
20:33:07.955 INFO dummyMultiplePassReadWalker - Done initializing engine
20:33:07.955 INFO ProgressMeter - Starting traversal
20:33:07.955 INFO ProgressMeter - Current Locus Elapsed Minutes Reads Processed Reads/Minute
20:33:07.955 INFO ProgressMeter - unmapped 0.0 0 NaN
20:33:07.955 INFO ProgressMeter - Traversal complete. Processed 0 total reads in 0.0 minutes.
20:33:07.956 INFO dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 8:33:07 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
20:33:07.960 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.960 INFO dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
20:33:07.960 INFO dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:33:07.960 INFO dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
20:33:07.960 INFO dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
20:33:07.960 INFO dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 8:33:07 PM UTC
20:33:07.960 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.960 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.960 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:33:07.960 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:33:07.960 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:33:07.960 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:33:07.960 INFO dummyMultiplePassReadWalker - Deflater: IntelDeflater
20:33:07.960 INFO dummyMultiplePassReadWalker - Inflater: IntelInflater
20:33:07.960 INFO dummyMultiplePassReadWalker - GCS max retries/reopens: 20
20:33:07.960 INFO dummyMultiplePassReadWalker - Requester pays: disabled
20:33:07.960 INFO dummyMultiplePassReadWalker - Initializing engine
20:33:07.961 INFO dummyMultiplePassReadWalker - Done initializing engine
20:33:07.961 INFO ProgressMeter - Starting traversal
20:33:07.961 INFO ProgressMeter - Current Locus Elapsed Minutes Reads Processed Reads/Minute
20:33:07.961 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.961 INFO ProgressMeter - unmapped 0.0 8 Infinity
20:33:07.961 INFO ProgressMeter - Traversal complete. Processed 8 total reads in 0.0 minutes.
20:33:07.961 INFO dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 8:33:07 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
20:33:07.965 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.965 INFO dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
20:33:07.965 INFO dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:33:07.965 INFO dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
20:33:07.965 INFO dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
20:33:07.965 INFO dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 8:33:07 PM UTC
20:33:07.965 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.965 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.965 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:33:07.965 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:33:07.965 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:33:07.965 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:33:07.965 INFO dummyMultiplePassReadWalker - Deflater: IntelDeflater
20:33:07.965 INFO dummyMultiplePassReadWalker - Inflater: IntelInflater
20:33:07.965 INFO dummyMultiplePassReadWalker - GCS max retries/reopens: 20
20:33:07.965 INFO dummyMultiplePassReadWalker - Requester pays: disabled
20:33:07.965 INFO dummyMultiplePassReadWalker - Initializing engine
20:33:07.966 INFO dummyMultiplePassReadWalker - Done initializing engine
20:33:07.966 INFO ProgressMeter - Starting traversal
20:33:07.966 INFO ProgressMeter - Current Locus Elapsed Minutes Reads Processed Reads/Minute
20:33:07.966 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.966 INFO dummyMultiplePassReadWalker - Starting traversal pass 2
20:33:07.966 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.966 INFO ProgressMeter - unmapped 0.0 16 Infinity
20:33:07.966 INFO ProgressMeter - Traversal complete. Processed 16 total reads in 0.0 minutes.
20:33:07.966 INFO dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 8:33:07 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
20:33:07.970 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.970 INFO dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
20:33:07.970 INFO dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:33:07.970 INFO dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
20:33:07.970 INFO dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
20:33:07.971 INFO dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 8:33:07 PM UTC
20:33:07.971 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.971 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.971 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:33:07.971 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:33:07.971 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:33:07.971 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:33:07.971 INFO dummyMultiplePassReadWalker - Deflater: IntelDeflater
20:33:07.971 INFO dummyMultiplePassReadWalker - Inflater: IntelInflater
20:33:07.971 INFO dummyMultiplePassReadWalker - GCS max retries/reopens: 20
20:33:07.971 INFO dummyMultiplePassReadWalker - Requester pays: disabled
20:33:07.971 INFO dummyMultiplePassReadWalker - Initializing engine
20:33:07.971 INFO dummyMultiplePassReadWalker - Done initializing engine
20:33:07.971 INFO ProgressMeter - Starting traversal
20:33:07.971 INFO ProgressMeter - Current Locus Elapsed Minutes Reads Processed Reads/Minute
20:33:07.972 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.972 INFO dummyMultiplePassReadWalker - Starting traversal pass 2
20:33:07.972 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.972 INFO dummyMultiplePassReadWalker - Starting traversal pass 3
20:33:07.972 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.972 INFO dummyMultiplePassReadWalker - Starting traversal pass 4
20:33:07.973 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.973 INFO dummyMultiplePassReadWalker - Starting traversal pass 5
20:33:07.973 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.973 INFO ProgressMeter - unmapped 0.0 40 1200000.0
20:33:07.973 INFO ProgressMeter - Traversal complete. Processed 40 total reads in 0.0 minutes.
20:33:07.973 INFO dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 8:33:07 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
20:33:07.978 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.978 INFO dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
20:33:07.978 INFO dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:33:07.978 INFO dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
20:33:07.978 INFO dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
20:33:07.978 INFO dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 8:33:07 PM UTC
20:33:07.978 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.978 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.979 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:33:07.979 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:33:07.979 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:33:07.979 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:33:07.979 INFO dummyMultiplePassReadWalker - Deflater: IntelDeflater
20:33:07.979 INFO dummyMultiplePassReadWalker - Inflater: IntelInflater
20:33:07.979 INFO dummyMultiplePassReadWalker - GCS max retries/reopens: 20
20:33:07.979 INFO dummyMultiplePassReadWalker - Requester pays: disabled
20:33:07.979 INFO dummyMultiplePassReadWalker - Initializing engine
20:33:07.979 INFO dummyMultiplePassReadWalker - Done initializing engine
20:33:07.979 INFO ProgressMeter - Starting traversal
20:33:07.979 INFO ProgressMeter - Current Locus Elapsed Minutes Reads Processed Reads/Minute
20:33:07.979 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.979 INFO dummyMultiplePassReadWalker - Starting traversal pass 2
20:33:07.980 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.980 INFO dummyMultiplePassReadWalker - Starting traversal pass 3
20:33:07.980 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.980 INFO dummyMultiplePassReadWalker - Starting traversal pass 4
20:33:07.980 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.980 INFO dummyMultiplePassReadWalker - Starting traversal pass 5
20:33:07.980 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.981 INFO dummyMultiplePassReadWalker - Starting traversal pass 6
20:33:07.981 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.981 INFO dummyMultiplePassReadWalker - Starting traversal pass 7
20:33:07.981 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.981 INFO dummyMultiplePassReadWalker - Starting traversal pass 8
20:33:07.981 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.981 INFO dummyMultiplePassReadWalker - Starting traversal pass 9
20:33:07.981 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.982 INFO dummyMultiplePassReadWalker - Starting traversal pass 10
20:33:07.982 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.982 INFO dummyMultiplePassReadWalker - Starting traversal pass 11
20:33:07.982 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.982 INFO dummyMultiplePassReadWalker - Starting traversal pass 12
20:33:07.982 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.982 INFO dummyMultiplePassReadWalker - Starting traversal pass 13
20:33:07.982 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.982 INFO dummyMultiplePassReadWalker - Starting traversal pass 14
20:33:07.983 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.983 INFO dummyMultiplePassReadWalker - Starting traversal pass 15
20:33:07.983 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.983 INFO dummyMultiplePassReadWalker - Starting traversal pass 16
20:33:07.983 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.983 INFO dummyMultiplePassReadWalker - Starting traversal pass 17
20:33:07.983 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.983 INFO dummyMultiplePassReadWalker - Starting traversal pass 18
20:33:07.983 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.983 INFO dummyMultiplePassReadWalker - Starting traversal pass 19
20:33:07.983 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.983 INFO dummyMultiplePassReadWalker - Starting traversal pass 20
20:33:07.984 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.984 INFO dummyMultiplePassReadWalker - Starting traversal pass 21
20:33:07.984 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.984 INFO dummyMultiplePassReadWalker - Starting traversal pass 22
20:33:07.984 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.984 INFO dummyMultiplePassReadWalker - Starting traversal pass 23
20:33:07.984 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.984 INFO dummyMultiplePassReadWalker - Starting traversal pass 24
20:33:07.984 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.984 INFO dummyMultiplePassReadWalker - Starting traversal pass 25
20:33:07.985 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:07.985 INFO ProgressMeter - unmapped 0.0 200 2000000.0
20:33:07.985 INFO ProgressMeter - Traversal complete. Processed 200 total reads in 0.0 minutes.
20:33:07.985 INFO dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 8:33:07 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
20:33:07.990 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.990 INFO dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
20:33:07.990 INFO dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:33:07.990 INFO dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
20:33:07.990 INFO dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
20:33:07.990 INFO dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 8:33:07 PM UTC
20:33:07.990 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.990 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.990 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:33:07.990 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:33:07.990 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:33:07.990 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:33:07.990 INFO dummyMultiplePassReadWalker - Deflater: IntelDeflater
20:33:07.990 INFO dummyMultiplePassReadWalker - Inflater: IntelInflater
20:33:07.990 INFO dummyMultiplePassReadWalker - GCS max retries/reopens: 20
20:33:07.990 INFO dummyMultiplePassReadWalker - Requester pays: disabled
20:33:07.990 INFO dummyMultiplePassReadWalker - Initializing engine
20:33:07.994 INFO IntervalArgumentCollection - Processing 31 bp from intervals
20:33:07.995 INFO dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 8:33:07 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
20:33:07.999 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.999 INFO dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
20:33:07.999 INFO dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:33:07.999 INFO dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
20:33:07.999 INFO dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
20:33:07.999 INFO dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 8:33:07 PM UTC
20:33:07.999 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.999 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:07.999 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:33:07.999 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:33:07.999 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:33:07.999 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:33:07.999 INFO dummyMultiplePassReadWalker - Deflater: IntelDeflater
20:33:07.999 INFO dummyMultiplePassReadWalker - Inflater: IntelInflater
20:33:08.000 INFO dummyMultiplePassReadWalker - GCS max retries/reopens: 20
20:33:08.000 INFO dummyMultiplePassReadWalker - Requester pays: disabled
20:33:08.000 INFO dummyMultiplePassReadWalker - Initializing engine
20:33:08.003 INFO IntervalArgumentCollection - Processing 31 bp from intervals
20:33:08.003 INFO dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 8:33:08 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
20:33:08.007 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:08.007 INFO dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
20:33:08.007 INFO dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:33:08.007 INFO dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
20:33:08.007 INFO dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
20:33:08.007 INFO dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 8:33:08 PM UTC
20:33:08.007 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:08.007 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:08.007 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:33:08.007 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:33:08.007 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:33:08.007 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:33:08.007 INFO dummyMultiplePassReadWalker - Deflater: IntelDeflater
20:33:08.007 INFO dummyMultiplePassReadWalker - Inflater: IntelInflater
20:33:08.007 INFO dummyMultiplePassReadWalker - GCS max retries/reopens: 20
20:33:08.007 INFO dummyMultiplePassReadWalker - Requester pays: disabled
20:33:08.007 INFO dummyMultiplePassReadWalker - Initializing engine
20:33:08.010 INFO IntervalArgumentCollection - Processing 31 bp from intervals
20:33:08.010 INFO dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 8:33:08 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
20:33:08.016 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:08.016 INFO dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
20:33:08.016 INFO dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:33:08.016 INFO dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
20:33:08.016 INFO dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
20:33:08.016 INFO dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 8:33:08 PM UTC
20:33:08.016 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:08.016 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:08.016 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:33:08.016 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:33:08.016 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:33:08.016 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:33:08.016 INFO dummyMultiplePassReadWalker - Deflater: IntelDeflater
20:33:08.016 INFO dummyMultiplePassReadWalker - Inflater: IntelInflater
20:33:08.016 INFO dummyMultiplePassReadWalker - GCS max retries/reopens: 20
20:33:08.016 INFO dummyMultiplePassReadWalker - Requester pays: disabled
20:33:08.016 INFO dummyMultiplePassReadWalker - Initializing engine
20:33:08.018 INFO dummyMultiplePassReadWalker - Done initializing engine
20:33:08.018 INFO ProgressMeter - Starting traversal
20:33:08.018 INFO ProgressMeter - Current Locus Elapsed Minutes Reads Processed Reads/Minute
20:33:08.018 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:08.018 INFO dummyMultiplePassReadWalker - Starting traversal pass 2
20:33:08.018 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:08.018 INFO ProgressMeter - unmapped 0.0 16 Infinity
20:33:08.018 INFO ProgressMeter - Traversal complete. Processed 16 total reads in 0.0 minutes.
20:33:08.018 INFO dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 8:33:08 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
20:33:08.025 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:08.025 INFO dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
20:33:08.025 INFO dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:33:08.025 INFO dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
20:33:08.025 INFO dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
20:33:08.025 INFO dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 8:33:08 PM UTC
20:33:08.026 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:08.026 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:08.026 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:33:08.026 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:33:08.026 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:33:08.026 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:33:08.026 INFO dummyMultiplePassReadWalker - Deflater: IntelDeflater
20:33:08.026 INFO dummyMultiplePassReadWalker - Inflater: IntelInflater
20:33:08.026 INFO dummyMultiplePassReadWalker - GCS max retries/reopens: 20
20:33:08.026 INFO dummyMultiplePassReadWalker - Requester pays: disabled
20:33:08.026 INFO dummyMultiplePassReadWalker - Initializing engine
20:33:08.027 INFO dummyMultiplePassReadWalker - Done initializing engine
20:33:08.027 INFO ProgressMeter - Starting traversal
20:33:08.027 INFO ProgressMeter - Current Locus Elapsed Minutes Reads Processed Reads/Minute
20:33:08.030 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:08.031 INFO dummyMultiplePassReadWalker - Starting traversal pass 2
20:33:08.031 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:08.031 INFO ProgressMeter - unmapped 0.0 16 240000.0
20:33:08.031 INFO ProgressMeter - Traversal complete. Processed 16 total reads in 0.0 minutes.
20:33:08.031 INFO dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 8:33:08 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600
20:33:08.038 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:08.038 INFO dummyMultiplePassReadWalker - org.broadinstitute.hellbender.engine vUnavailable
20:33:08.038 INFO dummyMultiplePassReadWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:33:08.038 INFO dummyMultiplePassReadWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
20:33:08.038 INFO dummyMultiplePassReadWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
20:33:08.038 INFO dummyMultiplePassReadWalker - Start Date/Time: July 15, 2025 at 8:33:08 PM UTC
20:33:08.038 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:08.038 INFO dummyMultiplePassReadWalker - ------------------------------------------------------------
20:33:08.038 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:33:08.038 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:33:08.038 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:33:08.038 INFO dummyMultiplePassReadWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:33:08.038 INFO dummyMultiplePassReadWalker - Deflater: IntelDeflater
20:33:08.038 INFO dummyMultiplePassReadWalker - Inflater: IntelInflater
20:33:08.038 INFO dummyMultiplePassReadWalker - GCS max retries/reopens: 20
20:33:08.038 INFO dummyMultiplePassReadWalker - Requester pays: disabled
20:33:08.038 INFO dummyMultiplePassReadWalker - Initializing engine
20:33:08.039 INFO dummyMultiplePassReadWalker - Done initializing engine
20:33:08.040 INFO ProgressMeter - Starting traversal
20:33:08.040 INFO ProgressMeter - Current Locus Elapsed Minutes Reads Processed Reads/Minute
20:33:08.043 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:08.043 INFO dummyMultiplePassReadWalker - Starting traversal pass 2
20:33:08.046 INFO dummyMultiplePassReadWalker - 0 read(s) filtered by: WellformedReadFilter
20:33:08.046 INFO ProgressMeter - unmapped 0.0 16 160000.0
20:33:08.046 INFO ProgressMeter - Traversal complete. Processed 16 total reads in 0.0 minutes.
20:33:08.046 INFO dummyMultiplePassReadWalker - Shutting down engine
[July 15, 2025 at 8:33:08 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassReadWalkerUnitTest$dummyMultiplePassReadWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600