bigdatagenomics / adam / 1857
81%
master: %

LAST BUILD BRANCH: cli-partition
DEFAULT BRANCH: master
Ran
Jobs 8
Files 130
Run time 1min
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1857

Pull #1423

jenkins

web-flow 
<a href="https://github.com/bigdatagenomics/adam/commit/<a class=hub.com/bigdatagenomics/adam/commit/bfdbcd025b0a832e0106a23f82010d77869a230f">bfdbcd025<a href="https://github.com/bigdatagenomics/adam/commit/bfdbcd025b0a832e0106a23f82010d77869a230f">">Merge </a><a class="double-link" href="https://github.com/bigdatagenomics/adam/commit/<a class="double-link" href="https://github.com/bigdatagenomics/adam/commit/13d77ef7fc10d3e6858bca8bf77577e8fad80cb3">13d77ef7f</a>">13d77ef7f</a><a href="https://github.com/bigdatagenomics/adam/commit/bfdbcd025b0a832e0106a23f82010d77869a230f"> 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%)

4540 of 5645 relevant lines covered (80.43%)

6.42 hits per line

New Missed Lines in Diff

Lines Coverage ∆ File
1
97.22
 97.22% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/recalibration/DinucCovariate.scala
2
54.71
 -1.43% adam-cli/src/main/scala/org/bdgenomics/adam/cli/Transform.scala
2
81.03
 -1.14% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/AlignmentRecordRDD.scala
3
93.18
 93.18% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/recalibration/BaseQualityRecalibration.scala
10
83.05
 83.05% adam-core/src/main/scala/org/bdgenomics/adam/models/SnpTable.scala

Uncovered Existing Lines

Lines Coverage ∆ File
1
68.53
 -0.51% adam-core/src/main/scala/org/bdgenomics/adam/rdd/GenomicRDD.scala
1
98.11
 -1.89% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/FlagStat.scala
1
88.64
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/util/TwoBitFile.scala
1
82.61
 3.58% adam-core/src/main/scala/org/bdgenomics/adam/rich/RichAlignmentRecord.scala
1
96.88
 -3.13% adam-core/src/main/scala/org/bdgenomics/adam/algorithms/smithwaterman/SmithWaterman.scala
1
87.95
 -1.2% adam-core/src/main/scala/org/bdgenomics/adam/converters/FastqRecordConverter.scala
1
95.51
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/converters/TranscriptEffectConverter.scala
1
94.19
 -1.16% adam-core/src/main/scala/org/bdgenomics/adam/converters/SAMRecordConverter.scala
1
91.89
 0.54% adam-core/src/main/scala/org/bdgenomics/adam/models/MdTag.scala
1
90.1
 2.97% adam-core/src/main/scala/org/bdgenomics/adam/models/SequenceDictionary.scala
1
60.0
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/models/RecordGroupDictionary.scala
2
64.94
 3.9% adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/Features.scala
2
59.46
 -5.41% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/MDTagging.scala
2
77.94
 -2.94% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/realignment/IndelRealignmentTarget.scala
2
89.9
 -2.02% adam-core/src/main/scala/org/bdgenomics/adam/converters/AlignmentRecordConverter.scala
2
73.33
 -13.33% adam-core/src/main/scala/org/bdgenomics/adam/models/SAMFileHeaderWritable.scala
3
91.43
 91.43% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/recalibration/Covariate.scala
3
85.15
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/converters/VariantContextConverter.scala
4
74.48
 0.0% adam-core/src/main/scala/org/bdgenomics/adam/rdd/ADAMContext.scala
4
80.73
 -1.83% adam-core/src/main/scala/org/bdgenomics/adam/rdd/feature/FeatureParser.scala
4
69.81
 -3.77% adam-cli/src/main/scala/org/bdgenomics/adam/cli/View.scala
12
81.03
 -1.14% adam-core/src/main/scala/org/bdgenomics/adam/rdd/read/AlignmentRecordRDD.scala
31
54.71
 -1.43% adam-cli/src/main/scala/org/bdgenomics/adam/cli/Transform.scala
Jobs
ID Job ID Ran Files Coverage
1 1857.1 232
80.25
2 1857.2 232
80.23
3 1857.3 232
80.25
4 1857.4 232
80.37
5 1857.5 232
80.23
6 1857.6 232
80.35
7 1857.7 232
80.35
8 1857.8 232
80.37
Source Files on build 1857
Coverage ∆ File Lines Relevant Covered Missed Hits/Line