Class org.broadinstitute.hellbender.tools.examples.ExampleReferenceWalkerIntegrationTest

all > org.broadinstitute.hellbender.tools.examples > ExampleReferenceWalkerIntegrationTest

tests

failures

ignored

0.017s

duration

100%

successful

Tests
Standard output
Standard error

Tests

Test	Duration	Result
testExampleReferenceWalker	0.017s	passed

Standard output

AAA Seen: 78 Reads 9 Variants 3
AAC Seen: 1 Reads 0 Variants 1
ACC Seen: 1 Reads 0 Variants 1
CCC Seen: 78 Reads 0 Variants 1
CCG Seen: 1 Reads 0 Variants 0
CGG Seen: 1 Reads 0 Variants 0
GGG Seen: 78 Reads 0 Variants 0
GGT Seen: 1 Reads 0 Variants 0
GTT Seen: 1 Reads 0 Variants 0
NAA Seen: 1 Reads 1 Variants 0
NN Seen: 1 Reads 0 Variants 0
NNA Seen: 1 Reads 1 Variants 0
NNN Seen: 78 Reads 1 Variants 0
TT Seen: 1 Reads 0 Variants 0
TTT Seen: 78 Reads 0 Variants 0

Standard error

20:41:40.803 INFO  ExampleReferenceWalker - ------------------------------------------------------------
20:41:40.803 INFO  ExampleReferenceWalker - org.broadinstitute.hellbender.tools.examples vUnavailable
20:41:40.803 INFO  ExampleReferenceWalker - For support and documentation go to https://software.broadinstitute.org/gatk/
20:41:40.803 INFO  ExampleReferenceWalker - Executing as runner@pkrvmxyh4eaekms on Linux v6.11.0-1015-azure amd64
20:41:40.804 INFO  ExampleReferenceWalker - Java runtime: OpenJDK 64-Bit Server VM v17.0.6+10
20:41:40.804 INFO  ExampleReferenceWalker - Start Date/Time: June 12, 2025 at 8:41:40 PM UTC
20:41:40.804 INFO  ExampleReferenceWalker - ------------------------------------------------------------
20:41:40.804 INFO  ExampleReferenceWalker - ------------------------------------------------------------
20:41:40.804 INFO  ExampleReferenceWalker - HTSJDK Defaults.COMPRESSION_LEVEL : 2
20:41:40.804 INFO  ExampleReferenceWalker - HTSJDK Defaults.USE_ASYNC_IO_READ_FOR_SAMTOOLS : false
20:41:40.804 INFO  ExampleReferenceWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_SAMTOOLS : true
20:41:40.804 INFO  ExampleReferenceWalker - HTSJDK Defaults.USE_ASYNC_IO_WRITE_FOR_TRIBBLE : false
20:41:40.804 INFO  ExampleReferenceWalker - Deflater: IntelDeflater
20:41:40.804 INFO  ExampleReferenceWalker - Inflater: IntelInflater
20:41:40.804 INFO  ExampleReferenceWalker - GCS max retries/reopens: 20
20:41:40.804 INFO  ExampleReferenceWalker - Requester pays: disabled
20:41:40.804 INFO  ExampleReferenceWalker - Initializing engine
20:41:40.806 INFO  FeatureManager - Using codec VCFCodec to read file file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/examples/ExampleReferenceWalker/example.vcf
20:41:40.807 WARN  IndexUtils - Feature file "file:///home/runner/work/gatk/gatk/src/test/resources/org/broadinstitute/hellbender/tools/examples/ExampleReferenceWalker/example.vcf" appears to contain no sequence dictionary. Attempting to retrieve a sequence dictionary from the associated index file
20:41:40.807 INFO  ExampleReferenceWalker - Done initializing engine
20:41:40.807 INFO  ProgressMeter - Starting traversal
20:41:40.807 INFO  ProgressMeter -        Current Locus  Elapsed Minutes       Bases Processed     Bases/Minute
20:41:40.815 INFO  ProgressMeter -             unmapped              0.0                   400        3000000.0
20:41:40.815 INFO  ProgressMeter - Traversal complete. Processed 400 total bases in 0.0 minutes.
20:41:40.816 INFO  ExampleReferenceWalker - Shutting down engine
[June 12, 2025 at 8:41:40 PM UTC] org.broadinstitute.hellbender.tools.examples.ExampleReferenceWalker done. Elapsed time: 0.00 minutes.
Runtime.totalMemory()=2063597568