Package org.broadinstitute.hellbender.tools.spark.pipelines
|
89%
successful |
Failed 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. testFileToFileWithReferenceBundle[11](print_reads.sorted.sam, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileWithReferenceBundle[14](print_reads.sorted.bam, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileWithReferenceBundle[15](print_reads.sorted.cram, .sam, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileWithReferenceBundle[16](print_reads.sorted.cram, .bam, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileWithReferenceBundle[17](print_reads.sorted.cram, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileWithReferenceBundle[20](print_reads.sorted.queryname.sam, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileWithReferenceBundle[23](print_reads.sorted.queryname.bam, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileWithReferenceBundle[24](print_reads.sorted.queryname.cram, .sam, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileWithReferenceBundle[25](print_reads.sorted.queryname.cram, .bam, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileWithReferenceBundle[26](print_reads.sorted.queryname.cram, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileWithReferenceBundle[27](print_reads.sorted.queryname.htsjdk-2.1.0.cram, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileWithReferenceBundle[28](print_reads.sorted.queryname.htsjdk-2.1.0.cram, .sam, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileWithReferenceBundle[2](print_reads.sam, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileWithReferenceBundle[5](print_reads.bam, .cram, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileWithReferenceBundle[6](print_reads.cram, .sam, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileWithReferenceBundle[7](print_reads.cram, .bam, print_reads.fasta)
- PrintReadsSparkIntegrationTest. testFileToFileWithReferenceBundle[8](print_reads.cram, .cram, print_reads.fasta)
Classes
| Class | Tests | Failures | Ignored | Duration | Success rate |
|---|---|---|---|---|---|
| BQSRPipelineSparkIntegrationTest | 3 | 0 | 0 | 5.657s | 100% |
| CountBasesSparkIntegrationTest | 7 | 0 | 0 | 1.567s | 100% |
| CountReadsSparkIntegrationTest | 19 | 0 | 0 | 3.949s | 100% |
| CountVariantsSparkIntegrationTest | 16 | 0 | 0 | 5.329s | 100% |
| FlagStatSparkIntegrationTest | 4 | 0 | 0 | 0.789s | 100% |
| MarkDuplicatesSparkIntegrationTest | 152 | 0 | 0 | 1m0.45s | 100% |
| PrintReadsSparkIntegrationTest | 123 | 34 | 1 | 26.876s | 72% |
| SortSamSparkIntegrationTest | 13 | 0 | 0 | 2.914s | 100% |