bigdatagenomics / adam / 2625

LAST BUILD BRANCH: cli-partition
DEFAULT BRANCH: master
Ran
Jobs 4
Files 145
Run time 51s
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2625

Pull #1895

jenkins

web-flow 
Merge 460f6bf6e into adff33603
Pull Request #1895: Adding ReadRDD, SequenceRDD, and SliceRDD.

739 of 739 new or added lines in 19 files covered. (100.0%)

6355 of 8038 relevant lines covered (79.06%)

3.16 hits per line

New Missed Lines in Diff

Lines Coverage ∆ File
1
90.91
 adam-core/src/main/scala/org/bdgenomics/adam/converters/FastaSliceConverter.scala
1
90.57
 -0.28% adam-core/src/main/scala/org/bdgenomics/adam/models/ReferenceRegion.scala
1
78.95
 adam-core/src/main/scala/org/bdgenomics/adam/rdd/sequence/FlankSlices.scala
2
40.91
 -1.2% adam-apis/src/main/scala/org/bdgenomics/adam/api/java/JavaADAMContext.scala
3
11.76
 adam-cli/src/main/scala/org/bdgenomics/adam/cli/CountSliceKmers.scala
3
90.91
 adam-core/src/main/scala/org/bdgenomics/adam/converters/FastaSequenceConverter.scala
3
87.85
 -0.5% adam-core/src/main/scala/org/bdgenomics/adam/models/SequenceDictionary.scala
6
69.7
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/util/ReferenceContigMap.scala
10
16.67
 adam-cli/src/main/scala/org/bdgenomics/adam/cli/TransformSlices.scala
11
15.38
 adam-cli/src/main/scala/org/bdgenomics/adam/cli/TransformSequences.scala
21
59.62
 adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/ReadRDD.scala
23
71.95
 adam-core/src/main/scala/org/bdgenomics/adam/rdd/sequence/SequenceRDD.scala
50
0.0
 0.0% adam-apis/src/main/scala/org/bdgenomics/adam/api/java/GenomicDatasetConverters.scala
54
0.0
 0.0% adam-apis/src/main/scala/org/bdgenomics/adam/api/java/GenomicRDDConverters.scala
77
33.62
 adam-core/src/main/scala/org/bdgenomics/adam/rdd/sequence/SliceRDD.scala
148
75.33
 -17.43% adam-core/src/main/scala/org/bdgenomics/adam/rdd/ADAMContext.scala

Uncovered Existing Lines

Lines Coverage ∆ File
1
65.63
 0.0% adam-cli/src/main/scala/org/bdgenomics/adam/cli/Reads2Coverage.scala
1
85.71
 -2.38% adam-cli/src/main/scala/org/bdgenomics/adam/cli/TransformGenotypes.scala
1
91.11
 -2.22% adam-core/src/main/scala/org/bdgenomics/adam/algorithms/consensus/NormalizationUtils.scala
1
96.88
 -3.13% adam-core/src/main/scala/org/bdgenomics/adam/algorithms/smithwaterman/SmithWaterman.scala
1
94.38
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/converters/TranscriptEffectConverter.scala
1
78.7
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/converters/VariantContextConverter.scala
1
65.38
 1.92% adam-core/src/main/scala/org/bdgenomics/adam/models/NonoverlappingRegions.scala
1
61.73
 1.23% adam-core/src/main/scala/org/bdgenomics/adam/models/RecordGroupDictionary.scala
1
85.0
 -5.0% adam-core/src/main/scala/org/bdgenomics/adam/rdd/fragment/Tab5InFormatter.scala
1
86.96
 -4.35% adam-core/src/main/scala/org/bdgenomics/adam/rdd/fragment/Tab6InFormatter.scala
1
59.46
 -2.7% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/MDTagging.scala
1
82.54
 -1.59% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/realignment/IndelRealignmentTarget.scala
2
69.7
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/util/ReferenceContigMap.scala
3
62.26
 -0.47% adam-cli/src/main/scala/org/bdgenomics/adam/cli/TransformAlignments.scala
3
83.49
 -1.83% adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/FeatureParser.scala
3
62.34
 -1.3% adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/Features.scala
3
82.43
 -0.81% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/AlignmentRecordRDD.scala
4
0.0
 0.0% adam-apis/src/main/scala/org/bdgenomics/adam/api/java/GenomicDatasetConverters.scala
4
0.0
 0.0% adam-apis/src/main/scala/org/bdgenomics/adam/api/java/GenomicRDDConverters.scala
4
66.67
 -5.56% adam-cli/src/main/scala/org/bdgenomics/adam/cli/View.scala
33
75.33
 -17.43% adam-core/src/main/scala/org/bdgenomics/adam/rdd/ADAMContext.scala
Jobs
ID Job ID Ran Files Coverage
1 2625.1 145
79.06
2 2625.2 145
79.06
3 2625.3 145
79.06
4 2625.4 145
79.06
Source Files on build 2625
Coverage ∆ File Lines Relevant Covered Missed Hits/Line