Test Result

37 failures (+37) , 1 skipped (±0)
283 tests (±0)
Took 2 min 54 sec.

All Failed Tests

Test NameDurationAge
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.discover and call simple SNP and score all sites46 sec1
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.discover and call short indel48 ms1
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.discover and call het and hom snps81 ms1
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.score a single read covering a deletion18 ms1
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.discover and force call hom alt deletion17 ms1
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.call hom alt AGCCAGTGGACGCCGACCT->A deletion at 1/87515916 ms1
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.call hom alt TACACACACACACACACACACACACACACAC->T deletion at 1/177726317 ms1
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.call hom alt CAG->C deletion at 1/106759617 ms1
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.call hom alt C->G snp at 1/87771517 ms1
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.call hom alt ACAG->A deletion at 1/88604917 ms1
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.call hom alt GA->CC mnp at 1/889158–922 ms1
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.call hom alt C->CCCCT insertion at 1/86651117 ms1
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.call het ATG->A deletion at 1/90513017 ms1
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.call het ATG->A deletion at 1/905130 while scoring all sites17 ms1
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.call het AG->A deletion at 1/90717019 ms1
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.call het T->G snp at 1/24089819 ms1
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.make het alt calls at biallelic snp locus19 ms1
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.call hom alt T->TAAA insertion at 1/412018588 ms1
 org.bdgenomics.avocado.genotyping.BiallelicGenotyperSuite.call het alt TTATA,TTA->T insertion at 1/527454721 ms1
 org.bdgenomics.avocado.genotyping.DiscoverVariantsSuite.no variants in rdd with unaligned read27 ms1
 org.bdgenomics.avocado.genotyping.DiscoverVariantsSuite.no variants in rdd with sequence match reads23 ms1
 org.bdgenomics.avocado.genotyping.DiscoverVariantsSuite.find one snp in reads with 1bp sequence mismatch23 ms1
 org.bdgenomics.avocado.genotyping.DiscoverVariantsSuite.find insertion in reads25 ms1
 org.bdgenomics.avocado.genotyping.DiscoverVariantsSuite.find deletion in reads25 ms1
 org.bdgenomics.avocado.genotyping.DiscoverVariantsSuite.find variants in alignment record rdd40 ms1
 org.bdgenomics.avocado.genotyping.ObserverSuite.generate observations for a sequence match under diploid model21 ms1
 org.bdgenomics.avocado.genotyping.ObserverSuite.generate observations for a read with an insertion under diploid model7 ms1
 org.bdgenomics.avocado.genotyping.ObserverSuite.generate observations for a read with a deletion under diploid model4 ms1
 org.bdgenomics.avocado.genotyping.SquareOffReferenceModelSuite.extract variants finds sites with a called alt32 ms1
 org.bdgenomics.avocado.models.CopyNumberMapSuite.create a map with only diploid features24 ms1
 org.bdgenomics.avocado.models.CopyNumberMapSuite.create a map with a mix of features23 ms1
 org.bdgenomics.avocado.util.PrefilterReadsSuite.filter rdd of reads mapped to autosomal chromosomes from generator26 ms1
 org.bdgenomics.avocado.util.PrefilterReadsSuite.filter rdd of reads mapped to autosomal + sex chromosomes from generator43 ms1
 org.bdgenomics.avocado.util.PrefilterReadsSuite.filter rdd of reads mapped to all chromosomes from generator25 ms1
 org.bdgenomics.avocado.util.PrefilterReadsSuite.filter rdd of reads uniquely mapped to autosomal chromosomes from generator0.1 sec1
 org.bdgenomics.avocado.util.PrefilterReadsSuite.filter rdd of reads uniquely mapped to autosomal + sex chromosomes from generator25 ms1
 org.bdgenomics.avocado.util.PrefilterReadsSuite.filter rdd of reads uniquely mapped to all chromosomes from generator29 ms1

All Tests

PackageDurationFail(diff)Skip(diff)Pass(diff)Total(diff)
org.bdgenomics.avocado.genotyping2 min 47 sec29+29159-2989
org.bdgenomics.avocado.models54 ms2+2043-245
org.bdgenomics.avocado.realigner0.62 sec007171
org.bdgenomics.avocado.util5.5 sec6+6072-678