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Commit ff2a5c18 authored by Peter van 't Hof's avatar Peter van 't Hof
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Remove name from flagstat, flagstat is not stranded anyway

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gentrap/src/main/scala/nl/lumc/sasc/biopet/pipelines/gentrap/measures/BiosBaseCounts.scala
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...@@ -81,7 +81,7 @@ class BiosBaseCounts(val root: Configurable) extends QScript with Measurement wi ...@@ -81,7 +81,7 @@ class BiosBaseCounts(val root: Configurable) extends QScript with Measurement wi
samtoolsView.input = bamFile samtoolsView.input = bamFile
samtoolsView.L = Some(annotationBed) samtoolsView.L = Some(annotationBed)
val samtoolsFlagstat = new SamtoolsFlagstat(this) val samtoolsFlagstat = new SamtoolsFlagstat(this)
samtoolsFlagstat.output = new File(outputDir, s"$sampleName.$name.exon.flagstats") samtoolsFlagstat.output = new File(outputDir, s"$sampleName.exon.flagstat")
add(samtoolsView | samtoolsFlagstat) add(samtoolsView | samtoolsFlagstat)
(geneAggr.output, exonAggr.output) (geneAggr.output, exonAggr.output)
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