bigdatagenomics / adam / 3009

LAST BUILD BRANCH: cli-partition
DEFAULT BRANCH: master
Ran
Jobs 1
Files 146
Run time 10s
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3009

Pull #1895

jenkins

GitHub 
Merge e6a045de3 into a512113f0
Pull Request #1895: Adding ReadRDD, SequenceRDD, and SliceRDD.

771 of 771 new or added lines in 19 files covered. (100.0%)

6819 of 8991 relevant lines covered (75.84%)

0.76 hits per line

New Missed Lines in Diff

Lines Coverage ∆ File
1
91.3
 -0.27% 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
50.0
 -2.63% adam-apis/src/main/scala/org/bdgenomics/adam/api/java/JavaADAMContext.scala
2
93.94
 adam-core/src/main/scala/org/bdgenomics/adam/converters/FastaSequenceConverter.scala
2
92.42
 adam-core/src/main/scala/org/bdgenomics/adam/converters/FastaSliceConverter.scala
3
11.11
 adam-cli/src/main/scala/org/bdgenomics/adam/cli/CountSliceKmers.scala
3
85.71
 -1.32% 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
25
55.36
 adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/ReadDataset.scala
26
69.77
 adam-core/src/main/scala/org/bdgenomics/adam/rdd/sequence/SequenceDataset.scala
51
0.0
 0.0% adam-apis/src/main/scala/org/bdgenomics/adam/api/java/GenomicDatasetConverters.scala
51
0.0
 0.0% adam-apis/src/main/scala/org/bdgenomics/adam/api/java/GenomicRDDConverters.scala
81
32.5
 adam-core/src/main/scala/org/bdgenomics/adam/rdd/sequence/SliceDataset.scala
181
76.32
 -16.14% adam-core/src/main/scala/org/bdgenomics/adam/rdd/ADAMContext.scala

Uncovered Existing Lines

Lines Coverage ∆ File
1
86.96
 -4.35% adam-core/src/main/scala/org/bdgenomics/adam/rdd/fragment/Tab6InFormatter.scala
1
94.64
 -0.38% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/realignment/RealignIndels.scala
1
94.27
 -0.52% adam-core/src/main/scala/org/bdgenomics/adam/models/MdTag.scala
1
93.33
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/models/SAMFileHeaderWritable.scala
1
88.64
 -1.14% adam-core/src/main/scala/org/bdgenomics/adam/converters/FastqRecordConverter.scala
1
85.0
 -5.0% adam-core/src/main/scala/org/bdgenomics/adam/rdd/fragment/Tab5InFormatter.scala
1
98.11
 -1.89% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/FlagStat.scala
1
95.35
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/converters/SAMRecordConverter.scala
1
90.0
 -1.43% adam-core/src/main/scala/org/bdgenomics/adam/rdd/ShuffleRegionJoin.scala
1
79.53
 0.23% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/AlignmentRecordDataset.scala
1
89.01
 -1.1% adam-core/src/main/scala/org/bdgenomics/adam/util/TwoBitFile.scala
1
91.3
 -0.27% adam-core/src/main/scala/org/bdgenomics/adam/models/ReferenceRegion.scala
1
81.82
 -9.09% adam-core/src/main/scala/org/bdgenomics/adam/projections/Projection.scala
1
92.86
 -3.57% adam-core/src/main/scala/org/bdgenomics/adam/models/ReferencePosition.scala
2
61.67
 -0.44% adam-cli/src/main/scala/org/bdgenomics/adam/cli/TransformAlignments.scala
2
80.61
 0.12% adam-core/src/main/scala/org/bdgenomics/adam/converters/VariantContextConverter.scala
2
85.71
 -1.32% adam-core/src/main/scala/org/bdgenomics/adam/models/SequenceDictionary.scala
3
72.73
 0.0% adam-cli/src/main/scala/org/bdgenomics/adam/cli/View.scala
3
94.38
 -2.25% adam-core/src/main/scala/org/bdgenomics/adam/converters/TranscriptEffectConverter.scala
4
84.07
 -2.65% adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/FeatureParser.scala
5
56.82
 -4.55% adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/Features.scala
6
76.32
 -16.14% adam-core/src/main/scala/org/bdgenomics/adam/rdd/ADAMContext.scala
Jobs
ID Job ID Ran Files Coverage
1 3009.1 146
75.84
Source Files on build 3009