bigdatagenomics / adam / 2678
80%
master: %

LAST BUILD BRANCH: cli-partition
DEFAULT BRANCH: master
Ran
Jobs 1
Files 141
Run time 42s
Badge
Embed ▾
README BADGES
x

If you need to use a raster PNG badge, change the '.svg' to '.png' in the link

Markdown

Textile

RDoc

HTML

Rst
2678

Pull #1921

jenkins

fnothaft 
Add functions to support dataset API from generic genomic datasets.

WIP towards #1728.
Pull Request #1921: Make Spark SQL APIs supported across all types

299 of 299 new or added lines in 12 files covered. (100.0%)

6307 of 7807 relevant lines covered (80.79%)

0.89 hits per line

New Missed Lines in Diff

Lines Coverage ∆ File
1
84.34
 -1.03% adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/CoverageRDD.scala
2
76.85
 -1.45% adam-core/src/main/scala/org/bdgenomics/adam/rdd/contig/NucleotideContigFragmentRDD.scala
2
87.58
 -1.16% adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/FeatureRDD.scala
2
86.36
 -2.7% adam-core/src/main/scala/org/bdgenomics/adam/rdd/fragment/FragmentRDD.scala
2
89.47
 -3.25% adam-core/src/main/scala/org/bdgenomics/adam/rdd/variant/GenotypeRDD.scala
2
88.24
 -3.6% adam-core/src/main/scala/org/bdgenomics/adam/rdd/variant/VariantRDD.scala
3
82.75
 0.59% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/AlignmentRecordRDD.scala
8
0.0
 0.0% adam-apis/src/main/scala/org/bdgenomics/adam/api/java/GenomicDatasetConverters.scala
8
0.0
 0.0% adam-apis/src/main/scala/org/bdgenomics/adam/api/java/GenomicRDDConverters.scala
16
91.25
 -2.04% adam-core/src/main/scala/org/bdgenomics/adam/rdd/ADAMContext.scala
23
73.58
 -18.92% adam-core/src/main/scala/org/bdgenomics/adam/rdd/variant/VariantContextRDD.scala
128
58.76
 -12.74% adam-core/src/main/scala/org/bdgenomics/adam/rdd/GenomicRDD.scala

Uncovered Existing Lines

Lines Coverage ∆ File
1
91.11
 -2.22% adam-core/src/main/scala/org/bdgenomics/adam/algorithms/consensus/NormalizationUtils.scala
1
90.74
 -0.93% adam-core/src/main/scala/org/bdgenomics/adam/converters/AlignmentRecordConverter.scala
1
93.33
 -6.67% adam-core/src/main/scala/org/bdgenomics/adam/models/SAMFileHeaderWritable.scala
1
90.0
 28.46% adam-core/src/main/scala/org/bdgenomics/adam/rdd/OutFormatter.scala
1
98.88
 -0.01% adam-core/src/main/scala/org/bdgenomics/adam/serialization/ADAMKryoRegistrator.scala
1
89.47
 2.52% adam-core/src/main/scala/org/bdgenomics/adam/util/PhredUtils.scala
1
88.35
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/util/TwoBitFile.scala
2
42.11
 -10.53% adam-apis/src/main/scala/org/bdgenomics/adam/api/java/JavaADAMContext.scala
2
72.22
 3.7% adam-cli/src/main/scala/org/bdgenomics/adam/cli/View.scala
2
95.51
 -2.25% adam-core/src/main/scala/org/bdgenomics/adam/converters/TranscriptEffectConverter.scala
2
59.26
 -2.47% adam-core/src/main/scala/org/bdgenomics/adam/models/RecordGroupDictionary.scala
2
85.32
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/FeatureParser.scala
3
62.26
 -0.94% adam-cli/src/main/scala/org/bdgenomics/adam/cli/TransformAlignments.scala
3
87.38
 -2.91% adam-core/src/main/scala/org/bdgenomics/adam/models/SequenceDictionary.scala
3
72.73
 -27.27% adam-core/src/main/scala/org/bdgenomics/adam/projections/Projection.scala
4
77.78
 -5.56% adam-cli/src/main/scala/org/bdgenomics/adam/cli/ADAM2Fasta.scala
4
89.47
 -3.25% adam-core/src/main/scala/org/bdgenomics/adam/rdd/variant/GenotypeRDD.scala
4
88.24
 -3.6% adam-core/src/main/scala/org/bdgenomics/adam/rdd/variant/VariantRDD.scala
7
84.34
 -1.03% adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/CoverageRDD.scala
7
86.36
 -2.7% adam-core/src/main/scala/org/bdgenomics/adam/rdd/fragment/FragmentRDD.scala
8
6.67
 0.78% adam-cli/src/main/scala/org/bdgenomics/adam/cli/ADAM2Fastq.scala
9
90.85
 1.24% adam-core/src/main/scala/org/bdgenomics/adam/models/ReferenceRegion.scala
11
87.58
 -1.16% adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/FeatureRDD.scala
15
11.76
 -88.24% adam-core/target/generated-sources/src/main/scala/org/bdgenomics/adam/projections/Enums.scala
21
76.85
 -1.45% adam-core/src/main/scala/org/bdgenomics/adam/rdd/contig/NucleotideContigFragmentRDD.scala
38
91.25
 -2.04% adam-core/src/main/scala/org/bdgenomics/adam/rdd/ADAMContext.scala
49
82.75
 0.59% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/AlignmentRecordRDD.scala
68
78.45
 -0.3% adam-core/src/main/scala/org/bdgenomics/adam/converters/VariantContextConverter.scala
75
58.76
 -12.74% adam-core/src/main/scala/org/bdgenomics/adam/rdd/GenomicRDD.scala
Jobs
ID Job ID Ran Files Coverage
1 2678.1 173
78.15
Source Files on build 2678
Coverage ∆ File Lines Relevant Covered Missed Hits/Line