Class org.broadinstitute.hellbender.tools.spark.sv.integration.StructuralVariationDiscoveryPipelineSparkIntegrationTest

all > org.broadinstitute.hellbender.tools.spark.sv.integration > StructuralVariationDiscoveryPipelineSparkIntegrationTest
2

tests
0

failures
0

ignored
12.872s

duration
100%

successful

Tests

Test Duration Result
testSVDiscoverPipelineRunnableLocal[0](StructuralVariationDiscoveryPipelineSparkIntegrationTestArgs{bam-loc='/home/runner/work/gatk/gatk/src/test/resources/large//sv/SVIntegrationTest_hg19.bam', kmer-ignore-list-loc='src/test/resources/org/broadinstitute/hellbender/tools/spark/sv/integration/inputs/dummy.kill.kmers', aligner-fef-index-img-loc='/home/runner/work/gatk/gatk/src/test/resources/large/human_g1k_v37.20.21.fasta.img', cnv-calls-loc='src/test/resources/org/broadinstitute/hellbender/tools/spark/sv/integration/inputs/hg19_DEL_cnv_calls.vcf', output-dir='/tmp/new1479385161077424357'}) 3.067s passed
testSVDiscoverPipelineRunnableMiniCluster[0](StructuralVariationDiscoveryPipelineSparkIntegrationTestArgs{bam-loc='/home/runner/work/gatk/gatk/src/test/resources/large//sv/SVIntegrationTest_hg19.bam', kmer-ignore-list-loc='src/test/resources/org/broadinstitute/hellbender/tools/spark/sv/integration/inputs/dummy.kill.kmers', aligner-fef-index-img-loc='/home/runner/work/gatk/gatk/src/test/resources/large/human_g1k_v37.20.21.fasta.img', cnv-calls-loc='src/test/resources/org/broadinstitute/hellbender/tools/spark/sv/integration/inputs/hg19_DEL_cnv_calls.vcf', output-dir='/tmp/new2021789842792049322'}) 9.805s passed

Standard error

[June 12, 2025 at 8:46:58 PM UTC] org.broadinstitute.hellbender.tools.spark.sv.StructuralVariationDiscoveryPipelineSpark done. Elapsed time: 0.05 minutes.
Runtime.totalMemory()=532676608
[June 12, 2025 at 8:47:07 PM UTC] org.broadinstitute.hellbender.tools.spark.sv.StructuralVariationDiscoveryPipelineSpark done. Elapsed time: 0.13 minutes.
Runtime.totalMemory()=2782920704
20:47:07.865 ERROR DataNode - Command processor encountered interrupt and exit.