bigdatagenomics / adam / 1856
81%
master: %

LAST BUILD BRANCH: cli-partition
DEFAULT BRANCH: master
Ran
Jobs 8
Files 131
Run time 1min
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1856

Pull #1423

jenkins

web-flow 
<a href="https://github.com/bigdatagenomics/adam/commit/<a class=hub.com/bigdatagenomics/adam/commit/dd1943337639f47d74f78f14ccc82e3daf8545e4">dd1943337<a href="https://github.com/bigdatagenomics/adam/commit/dd1943337639f47d74f78f14ccc82e3daf8545e4">">Merge </a><a class="double-link" href="https://github.com/bigdatagenomics/adam/commit/<a class="double-link" href="https://github.com/bigdatagenomics/adam/commit/a40cb7702b21aff7aac0a01daa992a72d3d687fa">a40cb7702</a>">a40cb7702</a><a href="https://github.com/bigdatagenomics/adam/commit/dd1943337639f47d74f78f14ccc82e3daf8545e4"> into 07c1982fb">07c1982fb</a>
Pull Request #1423: BQSR refactor for perf improvements

176 of 176 new or added lines in 10 files covered. (100.0%)

4555 of 5659 relevant lines covered (80.49%)

6.43 hits per line

New Missed Lines in Diff

Lines Coverage ∆ File
1
97.62
 97.62% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/recalibration/BaseQualityRecalibration.scala
1
97.22
 97.22% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/recalibration/DinucCovariate.scala
1
96.55
 96.55% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/recalibration/ObservationTable.scala
5
55.03
 -1.11% adam-cli/src/main/scala/org/bdgenomics/adam/cli/Transform.scala
10
83.05
 83.05% adam-core/src/main/scala/org/bdgenomics/adam/models/SnpTable.scala

Uncovered Existing Lines

Lines Coverage ∆ File
1
71.43
 -3.57% adam-core/src/main/scala/org/bdgenomics/adam/algorithms/consensus/Consensus.scala
1
96.88
 -3.13% adam-core/src/main/scala/org/bdgenomics/adam/algorithms/smithwaterman/SmithWaterman.scala
1
96.63
 1.12% adam-core/src/main/scala/org/bdgenomics/adam/converters/TranscriptEffectConverter.scala
1
90.81
 -0.54% adam-core/src/main/scala/org/bdgenomics/adam/models/MdTag.scala
1
95.83
 4.17% adam-core/src/main/scala/org/bdgenomics/adam/models/ReferencePosition.scala
1
58.75
 -1.25% adam-core/src/main/scala/org/bdgenomics/adam/models/RecordGroupDictionary.scala
1
67.31
 -1.92% adam-core/src/main/scala/org/bdgenomics/adam/models/NonoverlappingRegions.scala
1
82.57
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/FeatureParser.scala
1
80.0
 -5.0% adam-core/src/main/scala/org/bdgenomics/adam/rdd/fragment/InterleavedFASTQInFormatter.scala
1
84.52
 -0.65% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/realignment/RealignIndels.scala
1
82.61
 3.58% adam-core/src/main/scala/org/bdgenomics/adam/rich/RichAlignmentRecord.scala
1
62.16
 -2.7% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/MDTagging.scala
2
89.11
 1.98% adam-core/src/main/scala/org/bdgenomics/adam/models/SequenceDictionary.scala
2
80.0
 -6.67% adam-core/src/main/scala/org/bdgenomics/adam/models/SAMFileHeaderWritable.scala
2
77.94
 -2.94% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/realignment/IndelRealignmentTarget.scala
3
91.18
 91.18% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/recalibration/Covariate.scala
3
61.04
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/Features.scala
6
74.74
 0.26% adam-core/src/main/scala/org/bdgenomics/adam/rdd/ADAMContext.scala
13
81.3
 -0.87% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/AlignmentRecordRDD.scala
21
55.03
 -1.11% adam-cli/src/main/scala/org/bdgenomics/adam/cli/Transform.scala
Jobs
ID Job ID Ran Files Coverage
1 1856.1 234
80.33
2 1856.2 234
80.33
3 1856.3 234
80.35
4 1856.4 234
80.35
5 1856.5 234
80.35
6 1856.6 234
80.37
7 1856.7 234
80.37
8 1856.8 234
80.35
Source Files on build 1856
Coverage ∆ File Lines Relevant Covered Missed Hits/Line