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Updated FCPTest to match changes to UG in r5058. 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5066 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
kshakir 2011-01-24 19:30:02 +00:00
parent 7b92cd5008
commit 76ee57639d
1 changed files with 10 additions and 10 deletions
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20
scala/test/org/broadinstitute/sting/queue/pipeline/FullCallingPipelineTest.scala
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@ -23,11 +23,11 @@ class FullCallingPipelineTest extends BaseTest {
val dataset = newK1gDataset("Barcoded_1000G_WEx_chr20")
dataset.pipeline.getProject.setIntervalList(new File(BaseTest.GATKDataLocation + "whole_exome_agilent_1.1_refseq_plus_3_boosters.Homo_sapiens_assembly19.targets.chr20.interval_list"))
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.all.counter.nCalledLoci", 1352)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.known.counter.nCalledLoci", 1128)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.all.counter.nCalledLoci", 1348)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.known.counter.nCalledLoci", 1124)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.novel.counter.nCalledLoci", 224)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.all.titv.tiTvRatio", 3.6621)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.known.titv.tiTvRatio", 3.7395)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.all.titv.tiTvRatio", 3.6644)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.known.titv.tiTvRatio", 3.7426)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.novel.titv.tiTvRatio", 3.3077)
dataset.jobQueue = "hour"
@ -39,12 +39,12 @@ class FullCallingPipelineTest extends BaseTest {
val dataset = newK1gDataset("Barcoded_1000G_WEx")
dataset.pipeline.getProject.setIntervalList(new File(BaseTest.GATKDataLocation + "whole_exome_agilent_1.1_refseq_plus_3_boosters.Homo_sapiens_assembly19.targets.interval_list"))
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.all.counter.nCalledLoci", 50936)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.known.counter.nCalledLoci", 40956)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.novel.counter.nCalledLoci", 9980)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.all.titv.tiTvRatio", 3.2724)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.known.titv.tiTvRatio", 3.3349)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.novel.titv.tiTvRatio", 3.0340)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.all.counter.nCalledLoci", 50755)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.known.counter.nCalledLoci", 40894)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.novel.counter.nCalledLoci", 9861)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.all.titv.tiTvRatio", 3.2820)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.known.titv.tiTvRatio", 3.3384)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.novel.titv.tiTvRatio", 3.0630)
dataset.jobQueue = "gsa"