Package org.broadinstitute.hellbender.tools.spark.pipelines
|
99%
successful |
Ignored tests
- PrintReadsSparkIntegrationTest. testFileToFileUsingReferenceBundle[11](print_reads.sorted.sam, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileUsingReferenceBundle[14](print_reads.sorted.bam, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileUsingReferenceBundle[15](print_reads.sorted.cram, .sam, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileUsingReferenceBundle[16](print_reads.sorted.cram, .bam, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileUsingReferenceBundle[17](print_reads.sorted.cram, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileUsingReferenceBundle[20](print_reads.sorted.queryname.sam, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileUsingReferenceBundle[23](print_reads.sorted.queryname.bam, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileUsingReferenceBundle[24](print_reads.sorted.queryname.cram, .sam, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileUsingReferenceBundle[25](print_reads.sorted.queryname.cram, .bam, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileUsingReferenceBundle[26](print_reads.sorted.queryname.cram, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileUsingReferenceBundle[27](print_reads.sorted.queryname.htsjdk-2.1.0.cram, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileUsingReferenceBundle[28](print_reads.sorted.queryname.htsjdk-2.1.0.cram, .sam, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileUsingReferenceBundle[2](print_reads.sam, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileUsingReferenceBundle[5](print_reads.bam, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileUsingReferenceBundle[6](print_reads.cram, .sam, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileUsingReferenceBundle[7](print_reads.cram, .bam, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileUsingReferenceBundle[8](print_reads.cram, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testReadAndWriteCRAMAndReferenceOnHDFS
Classes
| Class | Tests | Failures | Ignored | Duration | Success rate |
|---|---|---|---|---|---|
| BQSRPipelineSparkIntegrationTest | 3 | 0 | 0 | 5.512s | 100% |
| CountBasesSparkIntegrationTest | 7 | 0 | 0 | 1.573s | 100% |
| CountReadsSparkIntegrationTest | 19 | 0 | 0 | 3.952s | 100% |
| CountVariantsSparkIntegrationTest | 16 | 0 | 0 | 5.546s | 100% |
| FlagStatSparkIntegrationTest | 4 | 0 | 0 | 0.809s | 100% |
| MarkDuplicatesSparkIntegrationTest | 152 | 0 | 0 | 1m1.40s | 100% |
| PrintReadsSparkIntegrationTest | 95 | 1 | 18 | 20.738s | 98% |
| SortSamSparkIntegrationTest | 13 | 0 | 0 | 2.939s | 100% |