Package org.broadinstitute.hellbender.tools.spark.sv.integration
|
66%
successful |
Failed tests
- FindBreakpointEvidenceSparkIntegrationTest. testFindBreakpointRunnableLocal[0](FindBreakpointEvidenceSparkIntegrationTestArgs{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-ref-index-img-loc='/home/runner/work/gatk/gatk/src/test/resources/large/human_g1k_v37.20.21.fasta.img', output-dir='/tmp/forNew2008707110744064124', bam-coverage='10.0'})
- FindBreakpointEvidenceSparkIntegrationTest. testFindBreakpointRunnableMiniCluster[0](FindBreakpointEvidenceSparkIntegrationTestArgs{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-ref-index-img-loc='/home/runner/work/gatk/gatk/src/test/resources/large/human_g1k_v37.20.21.fasta.img', output-dir='/tmp/forNew3452413354981422584', bam-coverage='10.0'})
- StructuralVariationDiscoveryPipelineSparkIntegrationTest. 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/new921381074256615202'})
- StructuralVariationDiscoveryPipelineSparkIntegrationTest. 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/new10220892705178568894'})
Classes
| Class | Tests | Failures | Ignored | Duration | Success rate |
|---|---|---|---|---|---|
| CpxVariantReInterpreterSparkIntegrationTest | 2 | 0 | 0 | 8.150s | 100% |
| DiscoverVariantsFromContigAlignmentsSAMSparkIntegrationTest | 2 | 0 | 0 | 1.706s | 100% |
| ExtractOriginalAlignmentRecordsByNameSparkIntegrationTest | 2 | 0 | 0 | 0.799s | 100% |
| FindBreakpointEvidenceSparkIntegrationTest | 2 | 2 | 0 | 5.071s | 0% |
| StructuralVariationDiscoveryPipelineSparkIntegrationTest | 2 | 2 | 0 | 6.006s | 0% |
| SvDiscoverFromLocalAssemblyContigAlignmentsSparkIntegrationTest | 2 | 0 | 0 | 5.412s | 100% |