Class org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest

all > org.broadinstitute.hellbender.engine > LocusWalkerByIntervalUnitTest
tests
failures
ignored
0.207s
duration
100%
successful
Tests
Standard error
Tests

Test	Duration	Result
testOverlappingBasesCoverageInformation[0]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@521d455c, [I@526ae1fc)	0.029s	passed
testOverlappingBasesCoverageInformation[10]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@1b58788a, [I@31881213)	0.013s	passed
testOverlappingBasesCoverageInformation[11]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@70916715, [I@72d4d9ac)	0.013s	passed
testOverlappingBasesCoverageInformation[12]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@7b4e5982, [I@17f216cc)	0.013s	passed
testOverlappingBasesCoverageInformation[1]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@5813046e, [I@6b1e72a4)	0.015s	passed
testOverlappingBasesCoverageInformation[2]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@11b26693, [I@7f4f432b)	0.014s	passed
testOverlappingBasesCoverageInformation[3]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@2670435, [I@682bff78)	0.015s	passed
testOverlappingBasesCoverageInformation[4]([20:1000-2000, 20:2001-3000], [Lhtsjdk.samtools.util.Locatable;@5125558b, [I@8c940e2)	0.018s	passed
testOverlappingBasesCoverageInformation[5]([20:1000-2000, 20:3001-4000], [Lhtsjdk.samtools.util.Locatable;@66c18b9b, [I@50d8b30)	0.015s	passed
testOverlappingBasesCoverageInformation[6]([20:1000-2000, 21:3001-4000], [Lhtsjdk.samtools.util.Locatable;@49d5b651, [I@34989ceb)	0.014s	passed
testOverlappingBasesCoverageInformation[7]([20:1000-2000, 20:3001-4000], [Lhtsjdk.samtools.util.Locatable;@227cba85, [I@19e552a3)	0.021s	passed
testOverlappingBasesCoverageInformation[8]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@68fe866b, [I@729feae8)	0.013s	passed
testOverlappingBasesCoverageInformation[9]([20:1000-2000], [Lhtsjdk.samtools.util.Locatable;@635b3ec7, [I@1f9b86f5)	0.014s	passed
Standard error

17:37:40.888 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:40.892 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression17114075007980295938.so: /tmp/libgkl_compression17114075007980295938.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:40.892 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:40.895 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression17559786575110148651.so: /tmp/libgkl_compression17559786575110148651.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:40.896 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:40.896 INFO  TestTransformedLocusWalker - org.broadinstitute.hellbender.engine vUnavailable
17:37:40.896 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
17:37:40.896 INFO  TestTransformedLocusWalker - Executing as runner@runnervmrcw8b on Linux v6.11.0-1018-azure aarch64
17:37:40.896 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
17:37:40.896 INFO  TestTransformedLocusWalker - Start Date/Time: October 27, 2025 at 5:37:40 PM UTC
17:37:40.896 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:40.896 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:40.896 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
17:37:40.896 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
17:37:40.896 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
17:37:40.896 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
17:37:40.896 INFO  TestTransformedLocusWalker - Deflater: JdkDeflater
17:37:40.896 INFO  TestTransformedLocusWalker - Inflater: JdkInflater
17:37:40.896 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
17:37:40.896 INFO  TestTransformedLocusWalker - Requester pays: disabled
17:37:40.896 INFO  TestTransformedLocusWalker - Initializing engine
17:37:40.898 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:40.898 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:40.898 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
17:37:40.898 INFO  TestTransformedLocusWalker - Done initializing engine
17:37:40.898 INFO  ProgressMeter - Starting traversal
17:37:40.898 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
17:37:40.913 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
17:37:40.913 INFO  ProgressMeter -              20:1999              0.0                  1001        4004000.0
17:37:40.913 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
17:37:40.913 INFO  TestTransformedLocusWalker - Shutting down engine
[October 27, 2025 at 5:37:40 PM UTC] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
17:37:40.918 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:40.921 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression17328467152302799893.so: /tmp/libgkl_compression17328467152302799893.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:40.921 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:40.924 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression2801215346718344572.so: /tmp/libgkl_compression2801215346718344572.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:40.925 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:40.925 INFO  TestTransformedLocusWalker - org.broadinstitute.hellbender.engine vUnavailable
17:37:40.925 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
17:37:40.925 INFO  TestTransformedLocusWalker - Executing as runner@runnervmrcw8b on Linux v6.11.0-1018-azure aarch64
17:37:40.925 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
17:37:40.925 INFO  TestTransformedLocusWalker - Start Date/Time: October 27, 2025 at 5:37:40 PM UTC
17:37:40.925 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:40.925 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:40.925 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
17:37:40.925 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
17:37:40.925 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
17:37:40.925 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
17:37:40.925 INFO  TestTransformedLocusWalker - Deflater: JdkDeflater
17:37:40.925 INFO  TestTransformedLocusWalker - Inflater: JdkInflater
17:37:40.925 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
17:37:40.925 INFO  TestTransformedLocusWalker - Requester pays: disabled
17:37:40.925 INFO  TestTransformedLocusWalker - Initializing engine
17:37:40.926 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:40.926 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:40.927 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
17:37:40.927 INFO  TestTransformedLocusWalker - Done initializing engine
17:37:40.927 INFO  ProgressMeter - Starting traversal
17:37:40.927 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
17:37:40.928 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
17:37:40.928 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
17:37:40.929 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
17:37:40.929 INFO  TestTransformedLocusWalker - Shutting down engine
[October 27, 2025 at 5:37:40 PM UTC] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
17:37:40.932 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:40.935 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression1294873878318141156.so: /tmp/libgkl_compression1294873878318141156.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:40.935 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:40.939 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression4971939186115116817.so: /tmp/libgkl_compression4971939186115116817.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:40.940 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:40.940 INFO  TestTransformedLocusWalker - org.broadinstitute.hellbender.engine vUnavailable
17:37:40.940 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
17:37:40.940 INFO  TestTransformedLocusWalker - Executing as runner@runnervmrcw8b on Linux v6.11.0-1018-azure aarch64
17:37:40.940 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
17:37:40.940 INFO  TestTransformedLocusWalker - Start Date/Time: October 27, 2025 at 5:37:40 PM UTC
17:37:40.940 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:40.940 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:40.940 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
17:37:40.940 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
17:37:40.940 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
17:37:40.940 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
17:37:40.940 INFO  TestTransformedLocusWalker - Deflater: JdkDeflater
17:37:40.940 INFO  TestTransformedLocusWalker - Inflater: JdkInflater
17:37:40.940 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
17:37:40.940 INFO  TestTransformedLocusWalker - Requester pays: disabled
17:37:40.940 INFO  TestTransformedLocusWalker - Initializing engine
17:37:40.941 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:40.941 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:40.941 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
17:37:40.941 INFO  TestTransformedLocusWalker - Done initializing engine
17:37:40.941 INFO  ProgressMeter - Starting traversal
17:37:40.941 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
17:37:40.942 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
17:37:40.943 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
17:37:40.943 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
17:37:40.943 INFO  TestTransformedLocusWalker - Shutting down engine
[October 27, 2025 at 5:37:40 PM UTC] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
17:37:40.946 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:40.949 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression9345200232830222393.so: /tmp/libgkl_compression9345200232830222393.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:40.949 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:40.953 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression16718937710789600789.so: /tmp/libgkl_compression16718937710789600789.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:40.953 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:40.953 INFO  TestTransformedLocusWalker - org.broadinstitute.hellbender.engine vUnavailable
17:37:40.954 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
17:37:40.954 INFO  TestTransformedLocusWalker - Executing as runner@runnervmrcw8b on Linux v6.11.0-1018-azure aarch64
17:37:40.954 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
17:37:40.954 INFO  TestTransformedLocusWalker - Start Date/Time: October 27, 2025 at 5:37:40 PM UTC
17:37:40.954 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:40.954 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:40.954 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
17:37:40.954 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
17:37:40.954 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
17:37:40.954 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
17:37:40.954 INFO  TestTransformedLocusWalker - Deflater: JdkDeflater
17:37:40.954 INFO  TestTransformedLocusWalker - Inflater: JdkInflater
17:37:40.954 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
17:37:40.954 INFO  TestTransformedLocusWalker - Requester pays: disabled
17:37:40.954 INFO  TestTransformedLocusWalker - Initializing engine
17:37:40.955 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:40.955 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:40.955 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
17:37:40.955 INFO  TestTransformedLocusWalker - Done initializing engine
17:37:40.955 INFO  ProgressMeter - Starting traversal
17:37:40.955 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
17:37:40.957 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
17:37:40.958 INFO  ProgressMeter -              20:1999              0.0                  1001       20020000.0
17:37:40.958 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
17:37:40.958 INFO  TestTransformedLocusWalker - Shutting down engine
[October 27, 2025 at 5:37:40 PM UTC] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
17:37:40.963 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:40.966 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression11016931088161422772.so: /tmp/libgkl_compression11016931088161422772.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:40.967 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:40.970 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression2158776788536116484.so: /tmp/libgkl_compression2158776788536116484.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:40.971 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:40.971 INFO  TestTransformedLocusWalker - org.broadinstitute.hellbender.engine vUnavailable
17:37:40.971 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
17:37:40.971 INFO  TestTransformedLocusWalker - Executing as runner@runnervmrcw8b on Linux v6.11.0-1018-azure aarch64
17:37:40.971 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
17:37:40.972 INFO  TestTransformedLocusWalker - Start Date/Time: October 27, 2025 at 5:37:40 PM UTC
17:37:40.972 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:40.972 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:40.972 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
17:37:40.972 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
17:37:40.972 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
17:37:40.972 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
17:37:40.972 INFO  TestTransformedLocusWalker - Deflater: JdkDeflater
17:37:40.972 INFO  TestTransformedLocusWalker - Inflater: JdkInflater
17:37:40.972 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
17:37:40.972 INFO  TestTransformedLocusWalker - Requester pays: disabled
17:37:40.972 INFO  TestTransformedLocusWalker - Initializing engine
17:37:40.973 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:40.973 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:40.973 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
17:37:40.973 INFO  TestTransformedLocusWalker - Done initializing engine
17:37:40.973 INFO  ProgressMeter - Starting traversal
17:37:40.973 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
17:37:40.975 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
17:37:40.976 INFO  ProgressMeter -              20:2999              0.0                  2001       60030000.0
17:37:40.976 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
17:37:40.976 INFO  TestTransformedLocusWalker - Shutting down engine
[October 27, 2025 at 5:37:40 PM UTC] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
17:37:40.979 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:40.982 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression3885508208882258337.so: /tmp/libgkl_compression3885508208882258337.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:40.982 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:40.985 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression14219926361649494741.so: /tmp/libgkl_compression14219926361649494741.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:40.986 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:40.986 INFO  TestTransformedLocusWalker - org.broadinstitute.hellbender.engine vUnavailable
17:37:40.986 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
17:37:40.986 INFO  TestTransformedLocusWalker - Executing as runner@runnervmrcw8b on Linux v6.11.0-1018-azure aarch64
17:37:40.986 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
17:37:40.986 INFO  TestTransformedLocusWalker - Start Date/Time: October 27, 2025 at 5:37:40 PM UTC
17:37:40.986 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:40.986 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:40.987 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
17:37:40.987 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
17:37:40.987 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
17:37:40.987 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
17:37:40.987 INFO  TestTransformedLocusWalker - Deflater: JdkDeflater
17:37:40.987 INFO  TestTransformedLocusWalker - Inflater: JdkInflater
17:37:40.987 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
17:37:40.987 INFO  TestTransformedLocusWalker - Requester pays: disabled
17:37:40.987 INFO  TestTransformedLocusWalker - Initializing engine
17:37:40.988 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:40.988 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:40.988 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
17:37:40.988 INFO  TestTransformedLocusWalker - Done initializing engine
17:37:40.988 INFO  ProgressMeter - Starting traversal
17:37:40.988 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
17:37:40.990 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
17:37:40.990 INFO  ProgressMeter -              20:3999              0.0                  2001       60030000.0
17:37:40.990 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
17:37:40.990 INFO  TestTransformedLocusWalker - Shutting down engine
[October 27, 2025 at 5:37:40 PM UTC] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
17:37:40.994 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:40.997 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression7750979158005013128.so: /tmp/libgkl_compression7750979158005013128.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:40.997 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:41.000 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression11360722774480952060.so: /tmp/libgkl_compression11360722774480952060.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:41.001 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.001 INFO  TestTransformedLocusWalker - org.broadinstitute.hellbender.engine vUnavailable
17:37:41.001 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
17:37:41.001 INFO  TestTransformedLocusWalker - Executing as runner@runnervmrcw8b on Linux v6.11.0-1018-azure aarch64
17:37:41.001 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
17:37:41.001 INFO  TestTransformedLocusWalker - Start Date/Time: October 27, 2025 at 5:37:40 PM UTC
17:37:41.001 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.001 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.002 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
17:37:41.002 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
17:37:41.002 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
17:37:41.002 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
17:37:41.002 INFO  TestTransformedLocusWalker - Deflater: JdkDeflater
17:37:41.002 INFO  TestTransformedLocusWalker - Inflater: JdkInflater
17:37:41.002 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
17:37:41.002 INFO  TestTransformedLocusWalker - Requester pays: disabled
17:37:41.002 INFO  TestTransformedLocusWalker - Initializing engine
17:37:41.002 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:41.003 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:41.003 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
17:37:41.003 INFO  TestTransformedLocusWalker - Done initializing engine
17:37:41.003 INFO  ProgressMeter - Starting traversal
17:37:41.003 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
17:37:41.005 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
17:37:41.005 INFO  ProgressMeter -              21:3999              0.0                  2001       60030000.0
17:37:41.005 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
17:37:41.005 INFO  TestTransformedLocusWalker - Shutting down engine
[October 27, 2025 at 5:37:41 PM UTC] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
17:37:41.009 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:41.012 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression13267015985717333987.so: /tmp/libgkl_compression13267015985717333987.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:41.012 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:41.015 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression723868413103799281.so: /tmp/libgkl_compression723868413103799281.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:41.016 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.016 INFO  TestTransformedLocusWalker - org.broadinstitute.hellbender.engine vUnavailable
17:37:41.016 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
17:37:41.016 INFO  TestTransformedLocusWalker - Executing as runner@runnervmrcw8b on Linux v6.11.0-1018-azure aarch64
17:37:41.016 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
17:37:41.016 INFO  TestTransformedLocusWalker - Start Date/Time: October 27, 2025 at 5:37:41 PM UTC
17:37:41.016 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.016 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.016 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
17:37:41.016 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
17:37:41.016 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
17:37:41.016 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
17:37:41.016 INFO  TestTransformedLocusWalker - Deflater: JdkDeflater
17:37:41.016 INFO  TestTransformedLocusWalker - Inflater: JdkInflater
17:37:41.016 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
17:37:41.016 INFO  TestTransformedLocusWalker - Requester pays: disabled
17:37:41.016 INFO  TestTransformedLocusWalker - Initializing engine
17:37:41.017 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:41.017 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:41.018 INFO  IntervalArgumentCollection - Processing 2001 bp from intervals
17:37:41.018 INFO  TestTransformedLocusWalker - Done initializing engine
17:37:41.018 INFO  ProgressMeter - Starting traversal
17:37:41.018 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
17:37:41.026 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
17:37:41.026 INFO  ProgressMeter -              20:3999              0.0                  2001       15007500.0
17:37:41.026 INFO  ProgressMeter - Traversal complete. Processed 2001 total loci in 0.0 minutes.
17:37:41.026 INFO  TestTransformedLocusWalker - Shutting down engine
[October 27, 2025 at 5:37:41 PM UTC] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
17:37:41.030 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:41.033 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression3426410471774376301.so: /tmp/libgkl_compression3426410471774376301.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:41.033 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:41.036 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression18250468544365731295.so: /tmp/libgkl_compression18250468544365731295.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:41.037 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.037 INFO  TestTransformedLocusWalker - org.broadinstitute.hellbender.engine vUnavailable
17:37:41.037 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
17:37:41.037 INFO  TestTransformedLocusWalker - Executing as runner@runnervmrcw8b on Linux v6.11.0-1018-azure aarch64
17:37:41.037 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
17:37:41.037 INFO  TestTransformedLocusWalker - Start Date/Time: October 27, 2025 at 5:37:41 PM UTC
17:37:41.037 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.037 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.038 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
17:37:41.038 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
17:37:41.038 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
17:37:41.038 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
17:37:41.038 INFO  TestTransformedLocusWalker - Deflater: JdkDeflater
17:37:41.038 INFO  TestTransformedLocusWalker - Inflater: JdkInflater
17:37:41.038 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
17:37:41.038 INFO  TestTransformedLocusWalker - Requester pays: disabled
17:37:41.038 INFO  TestTransformedLocusWalker - Initializing engine
17:37:41.039 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:41.039 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:41.039 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
17:37:41.039 INFO  TestTransformedLocusWalker - Done initializing engine
17:37:41.039 INFO  ProgressMeter - Starting traversal
17:37:41.039 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
17:37:41.040 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
17:37:41.040 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
17:37:41.040 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
17:37:41.040 INFO  TestTransformedLocusWalker - Shutting down engine
[October 27, 2025 at 5:37:41 PM UTC] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
17:37:41.043 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:41.047 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression15282178282537423604.so: /tmp/libgkl_compression15282178282537423604.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:41.047 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:41.050 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression7574459798975551049.so: /tmp/libgkl_compression7574459798975551049.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:41.051 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.051 INFO  TestTransformedLocusWalker - org.broadinstitute.hellbender.engine vUnavailable
17:37:41.051 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
17:37:41.051 INFO  TestTransformedLocusWalker - Executing as runner@runnervmrcw8b on Linux v6.11.0-1018-azure aarch64
17:37:41.051 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
17:37:41.051 INFO  TestTransformedLocusWalker - Start Date/Time: October 27, 2025 at 5:37:41 PM UTC
17:37:41.051 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.051 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.051 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
17:37:41.051 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
17:37:41.051 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
17:37:41.051 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
17:37:41.051 INFO  TestTransformedLocusWalker - Deflater: JdkDeflater
17:37:41.051 INFO  TestTransformedLocusWalker - Inflater: JdkInflater
17:37:41.051 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
17:37:41.051 INFO  TestTransformedLocusWalker - Requester pays: disabled
17:37:41.051 INFO  TestTransformedLocusWalker - Initializing engine
17:37:41.052 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:41.052 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:41.052 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
17:37:41.052 INFO  TestTransformedLocusWalker - Done initializing engine
17:37:41.052 INFO  ProgressMeter - Starting traversal
17:37:41.052 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
17:37:41.053 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
17:37:41.053 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
17:37:41.053 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
17:37:41.053 INFO  TestTransformedLocusWalker - Shutting down engine
[October 27, 2025 at 5:37:41 PM UTC] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
17:37:41.057 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:41.060 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression12927066690009655294.so: /tmp/libgkl_compression12927066690009655294.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:41.060 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:41.063 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression6230208568037192791.so: /tmp/libgkl_compression6230208568037192791.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:41.064 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.064 INFO  TestTransformedLocusWalker - org.broadinstitute.hellbender.engine vUnavailable
17:37:41.064 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
17:37:41.064 INFO  TestTransformedLocusWalker - Executing as runner@runnervmrcw8b on Linux v6.11.0-1018-azure aarch64
17:37:41.064 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
17:37:41.064 INFO  TestTransformedLocusWalker - Start Date/Time: October 27, 2025 at 5:37:41 PM UTC
17:37:41.064 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.064 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.065 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
17:37:41.065 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
17:37:41.065 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
17:37:41.065 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
17:37:41.065 INFO  TestTransformedLocusWalker - Deflater: JdkDeflater
17:37:41.065 INFO  TestTransformedLocusWalker - Inflater: JdkInflater
17:37:41.065 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
17:37:41.065 INFO  TestTransformedLocusWalker - Requester pays: disabled
17:37:41.065 INFO  TestTransformedLocusWalker - Initializing engine
17:37:41.066 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:41.066 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:41.066 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
17:37:41.066 INFO  TestTransformedLocusWalker - Done initializing engine
17:37:41.066 INFO  ProgressMeter - Starting traversal
17:37:41.066 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
17:37:41.067 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
17:37:41.067 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
17:37:41.067 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
17:37:41.067 INFO  TestTransformedLocusWalker - Shutting down engine
[October 27, 2025 at 5:37:41 PM UTC] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
17:37:41.071 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:41.074 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression5274710898402331183.so: /tmp/libgkl_compression5274710898402331183.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:41.074 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:41.077 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression15178991191678019148.so: /tmp/libgkl_compression15178991191678019148.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:41.078 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.078 INFO  TestTransformedLocusWalker - org.broadinstitute.hellbender.engine vUnavailable
17:37:41.078 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
17:37:41.078 INFO  TestTransformedLocusWalker - Executing as runner@runnervmrcw8b on Linux v6.11.0-1018-azure aarch64
17:37:41.078 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
17:37:41.078 INFO  TestTransformedLocusWalker - Start Date/Time: October 27, 2025 at 5:37:41 PM UTC
17:37:41.078 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.078 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.078 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
17:37:41.078 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
17:37:41.078 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
17:37:41.078 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
17:37:41.078 INFO  TestTransformedLocusWalker - Deflater: JdkDeflater
17:37:41.078 INFO  TestTransformedLocusWalker - Inflater: JdkInflater
17:37:41.078 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
17:37:41.078 INFO  TestTransformedLocusWalker - Requester pays: disabled
17:37:41.078 INFO  TestTransformedLocusWalker - Initializing engine
17:37:41.079 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:41.079 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:41.079 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
17:37:41.079 INFO  TestTransformedLocusWalker - Done initializing engine
17:37:41.079 INFO  ProgressMeter - Starting traversal
17:37:41.079 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
17:37:41.080 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
17:37:41.080 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
17:37:41.080 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
17:37:41.080 INFO  TestTransformedLocusWalker - Shutting down engine
[October 27, 2025 at 5:37:41 PM UTC] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000
17:37:41.084 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:41.087 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression1995096140871601964.so: /tmp/libgkl_compression1995096140871601964.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:41.087 INFO  NativeLibraryLoader - Loading libgkl_compression.so from jar:file:/home/runner/.gradle/caches/modules-2/files-2.1/com.intel.gkl/gkl/0.9.1/e23340ee393a396807581d7af5b835c7fcf10ab3/gkl-0.9.1.jar!/com/intel/gkl/native/libgkl_compression.so
17:37:41.090 WARN  NativeLibraryLoader - Unable to load libgkl_compression.so from native/libgkl_compression.so (/tmp/libgkl_compression1947253090963999309.so: /tmp/libgkl_compression1947253090963999309.so: cannot open shared object file: No such file or directory (Possible cause: can't load AMD 64 .so on a AARCH64 platform))
17:37:41.091 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.091 INFO  TestTransformedLocusWalker - org.broadinstitute.hellbender.engine vUnavailable
17:37:41.091 INFO  TestTransformedLocusWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
17:37:41.091 INFO  TestTransformedLocusWalker - Executing as runner@runnervmrcw8b on Linux v6.11.0-1018-azure aarch64
17:37:41.091 INFO  TestTransformedLocusWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
17:37:41.091 INFO  TestTransformedLocusWalker - Start Date/Time: October 27, 2025 at 5:37:41 PM UTC
17:37:41.091 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.091 INFO  TestTransformedLocusWalker - ------------------------------------------------------------
17:37:41.091 INFO  TestTransformedLocusWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
17:37:41.091 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
17:37:41.091 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
17:37:41.091 INFO  TestTransformedLocusWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
17:37:41.091 INFO  TestTransformedLocusWalker - Deflater: JdkDeflater
17:37:41.091 INFO  TestTransformedLocusWalker - Inflater: JdkInflater
17:37:41.091 INFO  TestTransformedLocusWalker - GCS max retries/reopens: 20
17:37:41.091 INFO  TestTransformedLocusWalker - Requester pays: disabled
17:37:41.091 INFO  TestTransformedLocusWalker - Initializing engine
17:37:41.092 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:41.092 WARN  IntelInflaterFactory - IntelInflater is not supported, using Java.util.zip.Inflater
17:37:41.092 INFO  IntervalArgumentCollection - Processing 1001 bp from intervals
17:37:41.092 INFO  TestTransformedLocusWalker - Done initializing engine
17:37:41.092 INFO  ProgressMeter - Starting traversal
17:37:41.092 INFO  ProgressMeter -        Current Locus  Elapsed Minutes        Loci Processed      Loci/Minute
17:37:41.093 INFO  TestTransformedLocusWalker - 0 read(s) filtered by: WellformedReadFilter 
0 read(s) filtered by: MappedReadFilter 
0 total reads filtered out of 0 reads processed
17:37:41.093 INFO  ProgressMeter -              20:1999              0.0                  1001       60060000.0
17:37:41.093 INFO  ProgressMeter - Traversal complete. Processed 1001 total loci in 0.0 minutes.
17:37:41.093 INFO  TestTransformedLocusWalker - Shutting down engine
[October 27, 2025 at 5:37:41 PM UTC] org.broadinstitute.hellbender.engine.LocusWalkerByIntervalUnitTest$TestTransformedLocusWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=524288000