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Updated pipeline test to match Eric's changes in r4846. 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4868 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
kshakir 2010-12-17 19:52:09 +00:00
parent 5dd0e8388b
commit 6f29a9dbb4
1 changed files with 12 additions and 12 deletions
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24
scala/test/org/broadinstitute/sting/queue/pipeline/FullCallingPipelineTest.scala
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@ -18,12 +18,12 @@ 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", 1359)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.known.counter.nCalledLoci", 1134)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.novel.counter.nCalledLoci", 225)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.all.titv.tiTvRatio", 3.6701)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.known.titv.tiTvRatio", 3.7647)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.novel.titv.tiTvRatio", 3.2453)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.all.counter.nCalledLoci", 1363)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.known.counter.nCalledLoci", 1139)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.novel.counter.nCalledLoci", 224)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.all.titv.tiTvRatio", 3.7000)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.known.titv.tiTvRatio", 3.7857)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.novel.titv.tiTvRatio", 3.3077)
dataset.jobQueue = "hour"
@ -34,12 +34,12 @@ 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", 51130)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.known.counter.nCalledLoci", 41042)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.novel.counter.nCalledLoci", 10088)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.all.titv.tiTvRatio", 3.2598)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.known.titv.tiTvRatio", 3.3307)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.novel.titv.tiTvRatio", 2.9937)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.all.counter.nCalledLoci", 51360)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.known.counter.nCalledLoci", 41203)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.novel.counter.nCalledLoci", 10157)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.all.titv.tiTvRatio", 3.2668)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.known.titv.tiTvRatio", 3.3376)
dataset.validations :+= new DoubleValidation("eval.dbsnp.all.called.novel.titv.tiTvRatio", 3.0020)
dataset.jobQueue = "gsa"
dataset.bigMemQueue = "gsa"