hammerlab / guacamole / 2582
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Merge pull request #613 from ryan-williams/split

Factor out some reusable components to other repos

2177 of 2762 relevant lines covered (78.82%)

0.79 hits per line

Uncovered Existing Lines

Lines Coverage ∆ File
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 src/main/scala/org/hammerlab/guacamole/jointcaller/evidence/TumorRNASingleSampleSingleAlleleEvidence.scala
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 src/main/scala/org/hammerlab/guacamole/pileup/PileupElement.scala
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 src/main/scala/org/hammerlab/guacamole/variants/CalledAllele.scala
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 src/main/scala/org/hammerlab/guacamole/variants/Allele.scala
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 src/main/scala/org/hammerlab/guacamole/variants/AlleleEvidence.scala
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 src/main/scala/org/hammerlab/guacamole/variants/GenotypeOutputArgs.scala
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 src/main/scala/org/hammerlab/guacamole/strings/TruncatedToString.scala
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 src/main/scala/org/hammerlab/guacamole/readsets/rdd/PartitionedRegions.scala
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 src/main/scala/org/hammerlab/guacamole/readsets/ReadSets.scala
1
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 src/main/scala/org/hammerlab/guacamole/likelihood/Likelihood.scala
1
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 src/main/scala/org/hammerlab/guacamole/jointcaller/evidence/TumorDNASingleSampleSingleAlleleEvidence.scala
1
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 src/main/scala/org/hammerlab/guacamole/filters/somatic/SomaticReadDepthFilter.scala
1
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 src/main/scala/org/hammerlab/guacamole/distributed/RegionsByContig.scala
1
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 src/main/scala/org/hammerlab/guacamole/distributed/SingleContigRegionIterator.scala
2
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 src/main/scala/org/hammerlab/guacamole/jointcaller/VCFOutput.scala
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 src/main/scala/org/hammerlab/guacamole/reference/ReferenceGenome.scala
2
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 src/main/scala/org/hammerlab/guacamole/readsets/io/ReadFilterArgs.scala
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 src/main/scala/org/hammerlab/guacamole/filters/somatic/SomaticAlternateReadDepthFilter.scala
2
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 src/main/scala/org/hammerlab/guacamole/filters/somatic/SomaticLogOddsFilter.scala
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 src/main/scala/org/hammerlab/guacamole/variants/Genotype.scala
3
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 src/main/scala/org/hammerlab/guacamole/filters/somatic/SomaticMedianMismatchFilter.scala
3
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 src/main/scala/org/hammerlab/guacamole/filters/somatic/SomaticMinimumLikelihoodFilter.scala
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 src/main/scala/org/hammerlab/guacamole/commands/SomaticJointCaller.scala
5
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 src/main/scala/org/hammerlab/guacamole/variants/VariantContext.scala
5
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 src/main/scala/org/hammerlab/guacamole/readsets/rdd/CoverageRDD.scala
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 src/main/scala/org/hammerlab/guacamole/filters/somatic/SomaticGenotypeFilter.scala
6
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 src/main/scala/org/hammerlab/guacamole/commands/SparkCommand.scala
8
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 src/main/scala/org/hammerlab/guacamole/assembly/AssemblyUtils.scala
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 src/main/scala/org/hammerlab/guacamole/commands/VariantSupport.scala
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 src/main/scala/org/hammerlab/guacamole/reference/ReferenceBroadcast.scala
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 src/main/scala/org/hammerlab/guacamole/commands/GermlineAssemblyCaller.scala
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 src/main/scala/org/hammerlab/guacamole/commands/VAFHistogram.scala
Jobs
ID Job ID Ran Files Coverage
1 2582.1 0
78.82
 Travis Job 2582.1
Source Files on build 2582
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