zzh
/
gatk-3.8
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases Wiki Activity

Updated to reflect QD changes in r4984 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4994 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
kshakir 2011-01-13 20:10:21 +00:00
parent 02dc0f97d1
commit 2163420942
1 changed files with 10 additions and 10 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

20
scala/test/org/broadinstitute/sting/queue/pipeline/FullCallingPipelineTest.scala
View File

@ -18,11 +18,11 @@ 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", 1363)
dataset.validations :+= new IntegerValidation("eval.dbsnp.all.called.known.counter.nCalledLoci", 1139)
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.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.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.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", 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.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.jobQueue = "gsa"
dataset.bigMemQueue = "gsa"