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Merge branch 'master' of ssh://nickel.broadinstitute.org/humgen/gsa-scr1/gsa-engineering/git/stable

This commit is contained in:
Mauricio Carneiro 2011-08-04 11:05:25 -04:00
parent 8981367307 23ec5b94cf
commit aff681e407
1 changed files with 2 additions and 2 deletions
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4
public/scala/qscript/org/broadinstitute/sting/queue/qscripts/DataProcessingPipeline.scala
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@ -305,7 +305,7 @@ class DataProcessingPipeline extends QScript {
this.out = outIntervals
this.mismatchFraction = 0.0
this.rodBind :+= RodBind("dbsnp", "VCF", dbSNP)
if (!indels.isEmpty)
if (indels != null)
this.rodBind :+= RodBind("indels", "VCF", indels)
this.scatterCount = nContigs
this.analysisName = queueLogDir + outIntervals + ".target"
@ -317,7 +317,7 @@ class DataProcessingPipeline extends QScript {
this.targetIntervals = tIntervals
this.out = outBam
this.rodBind :+= RodBind("dbsnp", "VCF", dbSNP)
if (!qscript.indels.isEmpty)
if (qscript.indels != null)
this.rodBind :+= RodBind("indels", "VCF", qscript.indels)
this.consensusDeterminationModel = consensusDeterminationModel
this.compress = 0