Class org.broadinstitute.hellbender.engine.MultiplePassVariantWalkerUnitTest
Tests
Test |
Duration |
Result |
testTwoPassTraversal |
0.013s |
passed |
Standard error
20:33:08.053 INFO DummyMultiplePassVariantWalker - ------------------------------------------------------------
20:33:08.053 INFO DummyMultiplePassVariantWalker - org.broadinstitute.hellbender.engine vUnavailable
20:33:08.053 INFO DummyMultiplePassVariantWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:33:08.053 INFO DummyMultiplePassVariantWalker - Executing as runner@pkrvmq0rgcvqdmg on Linux v6.11.0-1018-azure amd64
20:33:08.053 INFO DummyMultiplePassVariantWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
20:33:08.053 INFO DummyMultiplePassVariantWalker - Start Date/Time: July 15, 2025 at 8:33:08 PM UTC
20:33:08.053 INFO DummyMultiplePassVariantWalker - ------------------------------------------------------------
20:33:08.053 INFO DummyMultiplePassVariantWalker - ------------------------------------------------------------
20:33:08.054 INFO DummyMultiplePassVariantWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:33:08.054 INFO DummyMultiplePassVariantWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:33:08.054 INFO DummyMultiplePassVariantWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:33:08.054 INFO DummyMultiplePassVariantWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:33:08.054 INFO DummyMultiplePassVariantWalker - Deflater: IntelDeflater
20:33:08.054 INFO DummyMultiplePassVariantWalker - Inflater: IntelInflater
20:33:08.054 INFO DummyMultiplePassVariantWalker - GCS max retries/reopens: 20
20:33:08.054 INFO DummyMultiplePassVariantWalker - Requester pays: disabled
20:33:08.054 INFO DummyMultiplePassVariantWalker - Initializing engine
20:33:08.055 INFO FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/VariantsToTable/multiallelic.vcf
20:33:08.056 WARN IndexUtils - Feature file "file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/VariantsToTable/multiallelic.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file
20:33:08.056 WARN IndexUtils - Feature file "file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/VariantsToTable/multiallelic.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file
20:33:08.056 WARN IndexUtils - Feature file "file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/walkers/variantutils/VariantsToTable/multiallelic.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file
20:33:08.057 INFO DummyMultiplePassVariantWalker - Done initializing engine
20:33:08.057 INFO ProgressMeter - Starting traversal
20:33:08.057 INFO ProgressMeter - Current Locus Elapsed Minutes Variants Processed Variants/Minute
20:33:08.057 INFO DummyMultiplePassVariantWalker - Starting pass 0 through the variants
20:33:08.058 INFO DummyMultiplePassVariantWalker - Finished pass 0 through the variants
20:33:08.058 INFO DummyMultiplePassVariantWalker - Starting pass 1 through the variants
20:33:08.059 INFO DummyMultiplePassVariantWalker - Finished pass 1 through the variants
20:33:08.059 INFO DummyMultiplePassVariantWalker - No variants filtered by: AllowAllVariantsVariantFilter
20:33:08.059 INFO DummyMultiplePassVariantWalker - 0 read(s) filtered by: AllowAllReadsReadFilter
20:33:08.059 INFO ProgressMeter - unmapped 0.0 104 3120000.0
20:33:08.060 INFO ProgressMeter - Traversal complete. Processed 104 total variants in 0.0 minutes.
20:33:08.060 INFO DummyMultiplePassVariantWalker - Shutting down engine
[July 15, 2025 at 8:33:08 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassVariantWalkerUnitTest$DummyMultiplePassVariantWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600