2594
78%

Lines	Coverage	File
1	100.0	src/main/scala/org/hammerlab/guacamole/Main.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/commands/SomaticStandardCaller.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/filters/FishersExactTest.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/filters/genotype/MinimumAlternateReadDepthFilter.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/filters/genotype/MinimumLikelihoodFilter.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/filters/genotype/ReadDepthFilter.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/filters/somatic/SomaticMinimumLikelihoodFilter.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/jointcaller/evidence/TumorDNASingleSampleSingleAlleleEvidence.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/jointcaller/package.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/jointcaller/pileup_summarization/ReadSubsequence.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/pileup/Pileup.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/readsets/rdd/PartitionedRegions.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/reference/MapBackedReferenceSequence.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/variants/Allele.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/variants/GenotypeOutputArgs.scala
2	100.0	src/main/scala/org/hammerlab/guacamole/commands/SomaticJointCaller.scala
2	100.0	src/main/scala/org/hammerlab/guacamole/commands/VariantSupport.scala
2	100.0	src/main/scala/org/hammerlab/guacamole/reference/ArrayBackedReferenceSequence.scala
2	100.0	src/main/scala/org/hammerlab/guacamole/reference/ReferenceBroadcast.scala
3	100.0	src/main/scala/org/hammerlab/guacamole/filters/genotype/GenotypeFilter.scala
3	100.0	src/main/scala/org/hammerlab/guacamole/jointcaller/evidence/TumorRNASingleSampleSingleAlleleEvidence.scala
3	100.0	src/main/scala/org/hammerlab/guacamole/pileup/PileupElement.scala
4	100.0	src/main/scala/org/hammerlab/guacamole/commands/GermlineAssemblyCaller.scala
4	100.0	src/main/scala/org/hammerlab/guacamole/jointcaller/AlleleAtLocus.scala
4	100.0	src/main/scala/org/hammerlab/guacamole/jointcaller/pileup_summarization/PileupStats.scala
4	100.0	src/main/scala/org/hammerlab/guacamole/pileup/Alignment.scala
6	100.0	src/main/scala/org/hammerlab/guacamole/loci/partitioning/CappedRegionsPartitioner.scala
6	100.0	src/main/scala/org/hammerlab/guacamole/readsets/rdd/CoverageRDD.scala
7	100.0	src/main/scala/org/hammerlab/guacamole/loci/partitioning/LociPartitioning.scala
8	100.0	src/main/scala/org/hammerlab/guacamole/assembly/AssemblyUtils.scala
13	100.0	src/main/scala/org/hammerlab/guacamole/assembly/DeBruijnGraph.scala
13	100.0	src/main/scala/org/hammerlab/guacamole/commands/VAFHistogram.scala
23	100.0	src/main/scala/org/hammerlab/guacamole/jointcaller/VCFOutput.scala

Uncovered Existing Lines

Lines	Coverage	File
1	100.0	src/main/scala/org/hammerlab/guacamole/filters/genotype/MinimumLikelihoodFilter.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/loci/partitioning/CappedRegionsPartitioner.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/filters/genotype/GenotypeFilter.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/commands/GermlineAssemblyCaller.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/distributed/RegionsByContig.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/jointcaller/evidence/TumorDNASingleSampleSingleAlleleEvidence.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/filters/genotype/ReadDepthFilter.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/assembly/DeBruijnGraph.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/filters/somatic/SomaticMinimumLikelihoodFilter.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/commands/SomaticStandardCaller.scala
1	100.0	src/main/scala/org/hammerlab/guacamole/filters/genotype/MinimumAlternateReadDepthFilter.scala
2	100.0	src/main/scala/org/hammerlab/guacamole/assembly/AssemblyUtils.scala
2	100.0	src/main/scala/org/hammerlab/guacamole/jointcaller/InputCollection.scala
2	100.0	src/main/scala/org/hammerlab/guacamole/readsets/rdd/CoverageRDD.scala
2	100.0	src/main/scala/org/hammerlab/guacamole/loci/partitioning/LociPartitioner.scala
2	100.0	src/main/scala/org/hammerlab/guacamole/pileup/PileupElement.scala
2	100.0	src/main/scala/org/hammerlab/guacamole/pileup/Alignment.scala
2	100.0	src/main/scala/org/hammerlab/guacamole/jointcaller/evidence/MultiSampleMultiAlleleEvidence.scala
3	100.0	src/main/scala/org/hammerlab/guacamole/jointcaller/evidence/MultiSampleSingleAlleleEvidence.scala
3	100.0	src/main/scala/org/hammerlab/guacamole/loci/partitioning/LociPartitioning.scala
3	100.0	src/main/scala/org/hammerlab/guacamole/Main.scala
4	100.0	src/main/scala/org/hammerlab/guacamole/commands/VariantSupport.scala
4	100.0	src/main/scala/org/hammerlab/guacamole/readsets/rdd/PartitionedRegions.scala
5	100.0	src/main/scala/org/hammerlab/guacamole/reference/ReferenceBroadcast.scala
6	100.0	src/main/scala/org/hammerlab/guacamole/jointcaller/VCFOutput.scala
6	100.0	src/main/scala/org/hammerlab/guacamole/commands/SomaticJointCaller.scala
8	100.0	src/main/scala/org/hammerlab/guacamole/commands/VAFHistogram.scala

Jobs

ID	Job ID	Ran	Files	Coverage
1	2594.1	14 Mar 2017 04:13PM UTC	0	78.17	Travis Job 2594.1

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