Package org.broadinstitute.hellbender.tools.spark.pipelines
|
98%
successful |
Failed tests
- BQSRPipelineSparkIntegrationTest. testBQSRLocalRef[0](BQSR(bam='src/test/resources/org/broadinstitute/hellbender/tools/BQSR/CEUTrio.HiSeq.WGS.b37.ch20.1m-1m1k.NA12878.bam', args='-indels --enable-baq --use-original-qualities false'))
- BQSRPipelineSparkIntegrationTest. testBQSRLocalRef[1](BQSR(bam='src/test/resources/org/broadinstitute/hellbender/tools/BQSR/CEUTrio.HiSeq.WGS.b37.NA12878.20.21.10m-10m100.bam', args='-indels --enable-baq --known-sites src/test/resources/org/broadinstitute/hellbender/tools/BQSR/dbsnp_138.b37.21.10m-10m100.vcf'))
- BQSRPipelineSparkIntegrationTest. testBQSRLocalRef[2](BQSR(bam='src/test/resources/org/broadinstitute/hellbender/tools/BQSR/CEUTrio.HiSeq.WGS.b37.NA12878.20.21.10m-10m100.cram', args='-indels --enable-baq --known-sites src/test/resources/org/broadinstitute/hellbender/tools/BQSR/dbsnp_138.b37.21.10m-10m100.vcf'))
Classes
| Class | Tests | Failures | Ignored | Duration | Success rate |
|---|---|---|---|---|---|
| BQSRPipelineSparkIntegrationTest | 3 | 3 | 0 | 0.628s | 0% |
| CountBasesSparkIntegrationTest | 7 | 0 | 0 | 1.548s | 100% |
| CountReadsSparkIntegrationTest | 19 | 0 | 0 | 3.775s | 100% |
| CountVariantsSparkIntegrationTest | 16 | 0 | 0 | 5.456s | 100% |
| FlagStatSparkIntegrationTest | 4 | 0 | 0 | 0.757s | 100% |
| MarkDuplicatesSparkIntegrationTest | 152 | 0 | 0 | 1m2.97s | 100% |
| PrintReadsSparkIntegrationTest | 65 | 0 | 0 | 26.262s | 100% |
| SortSamSparkIntegrationTest | 13 | 0 | 0 | 2.957s | 100% |