bigdatagenomics / adam / 2623

LAST BUILD BRANCH: cli-partition
DEFAULT BRANCH: master
Ran
Jobs 4
Files 145
Run time 11min
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2623

Pull #1895

jenkins

web-flow 
Merge 3383a3c89 into adff33603
Pull Request #1895: Adding ReadRDD, SequenceRDD, and SliceRDD.

724 of 724 new or added lines in 19 files covered. (100.0%)

6362 of 8027 relevant lines covered (79.26%)

3.76 hits per line

New Missed Lines in Diff

Lines Coverage ∆ File
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
3
11.76
 adam-cli/src/main/scala/org/bdgenomics/adam/cli/CountSliceKmers.scala
3
85.98
 -2.37% adam-core/src/main/scala/org/bdgenomics/adam/models/SequenceDictionary.scala
5
89.36
 adam-core/src/main/scala/org/bdgenomics/adam/converters/FastaSequenceConverter.scala
6
69.7
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/util/ReferenceContigMap.scala
8
20.0
 adam-cli/src/main/scala/org/bdgenomics/adam/cli/TransformSequences.scala
10
16.67
 adam-cli/src/main/scala/org/bdgenomics/adam/cli/TransformSlices.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
171
75.93
 -16.83% adam-core/src/main/scala/org/bdgenomics/adam/rdd/ADAMContext.scala

Uncovered Existing Lines

Lines Coverage ∆ File
1
85.71
 -2.38% adam-cli/src/main/scala/org/bdgenomics/adam/cli/TransformGenotypes.scala
1
84.21
 -2.63% adam-cli/src/main/scala/org/bdgenomics/adam/cli/TransformVariants.scala
1
91.11
 -2.22% adam-core/src/main/scala/org/bdgenomics/adam/algorithms/consensus/NormalizationUtils.scala
1
91.67
 -0.93% adam-core/src/main/scala/org/bdgenomics/adam/converters/AlignmentRecordConverter.scala
1
96.63
 2.25% adam-core/src/main/scala/org/bdgenomics/adam/converters/TranscriptEffectConverter.scala
1
78.95
 0.25% adam-core/src/main/scala/org/bdgenomics/adam/converters/VariantContextConverter.scala
1
93.75
 -0.52% adam-core/src/main/scala/org/bdgenomics/adam/models/MdTag.scala
1
67.31
 3.85% 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
95.83
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/models/ReferencePosition.scala
1
93.33
 -6.67% adam-core/src/main/scala/org/bdgenomics/adam/models/SAMFileHeaderWritable.scala
1
86.24
 0.92% adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/FeatureParser.scala
1
98.11
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/FlagStat.scala
1
84.13
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/realignment/IndelRealignmentTarget.scala
1
90.0
 -1.43% adam-core/src/main/scala/org/bdgenomics/adam/rdd/ShuffleRegionJoin.scala
2
62.26
 -0.47% adam-cli/src/main/scala/org/bdgenomics/adam/cli/TransformAlignments.scala
2
69.7
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/util/ReferenceContigMap.scala
3
72.22
 0.0% adam-cli/src/main/scala/org/bdgenomics/adam/cli/View.scala
3
62.34
 -1.3% adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/Features.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
82.43
 -0.81% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/AlignmentRecordRDD.scala
5
75.93
 -16.83% adam-core/src/main/scala/org/bdgenomics/adam/rdd/ADAMContext.scala
Jobs
ID Job ID Ran Files Coverage
1 2623.1 242
78.44
2 2623.2 145
79.26
3 2623.3 145
79.26
4 2623.4 145
79.26
Source Files on build 2623
Coverage ∆ File Lines Relevant Covered Missed Hits/Line