Class org.broadinstitute.hellbender.engine.MultiplePassVariantWalkerUnitTest
Tests
| Test |
Duration |
Result |
| testTwoPassTraversal |
0.016s |
passed |
Standard error
14:51:05.326 INFO DummyMultiplePassVariantWalker - ------------------------------------------------------------
14:51:05.326 INFO DummyMultiplePassVariantWalker - org.broadinstitute.hellbender.engine vUnavailable
14:51:05.326 INFO DummyMultiplePassVariantWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
14:51:05.326 INFO DummyMultiplePassVariantWalker - Executing as runner@runnervmnay03 on Linux v6.14.0-1017-azure amd64
14:51:05.326 INFO DummyMultiplePassVariantWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
14:51:05.327 INFO DummyMultiplePassVariantWalker - Start Date/Time: March 4, 2026 at 2:51:05 PM UTC
14:51:05.327 INFO DummyMultiplePassVariantWalker - ------------------------------------------------------------
14:51:05.327 INFO DummyMultiplePassVariantWalker - ------------------------------------------------------------
14:51:05.327 INFO DummyMultiplePassVariantWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
14:51:05.327 INFO DummyMultiplePassVariantWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
14:51:05.327 INFO DummyMultiplePassVariantWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
14:51:05.327 INFO DummyMultiplePassVariantWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
14:51:05.327 INFO DummyMultiplePassVariantWalker - Deflater: IntelDeflater
14:51:05.327 INFO DummyMultiplePassVariantWalker - Inflater: IntelInflater
14:51:05.327 INFO DummyMultiplePassVariantWalker - GCS max retries/reopens: 20
14:51:05.327 INFO DummyMultiplePassVariantWalker - Requester pays: disabled
14:51:05.327 INFO DummyMultiplePassVariantWalker - Initializing engine
14:51:05.328 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
14:51:05.330 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
14:51:05.330 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
14:51:05.330 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
14:51:05.330 INFO DummyMultiplePassVariantWalker - Done initializing engine
14:51:05.330 INFO ProgressMeter - Starting traversal
14:51:05.331 INFO ProgressMeter - Current Locus Elapsed Minutes Variants Processed Variants/Minute
14:51:05.331 INFO DummyMultiplePassVariantWalker - Starting pass 0 through the variants
14:51:05.333 INFO DummyMultiplePassVariantWalker - Finished pass 0 through the variants
14:51:05.333 INFO DummyMultiplePassVariantWalker - Starting pass 1 through the variants
14:51:05.334 INFO DummyMultiplePassVariantWalker - Finished pass 1 through the variants
14:51:05.334 INFO DummyMultiplePassVariantWalker - No variants filtered by: AllowAllVariantsVariantFilter
14:51:05.334 INFO DummyMultiplePassVariantWalker - 0 read(s) filtered by: AllowAllReadsReadFilter
14:51:05.334 INFO ProgressMeter - unmapped 0.0 104 2080000.0
14:51:05.334 INFO ProgressMeter - Traversal complete. Processed 104 total variants in 0.0 minutes.
14:51:05.334 INFO DummyMultiplePassVariantWalker - Shutting down engine
[March 4, 2026 at 2:51:05 PM UTC] org.broadinstitute.hellbender.engine.MultiplePassVariantWalkerUnitTest$DummyMultiplePassVariantWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=629145600