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biopet.biopet
Commit e49f81e3 authored by Peter van 't Hof's avatar Peter van 't Hof
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Added singletons to summary

parent 11c11c41
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biopet-tools/src/main/scala/nl/lumc/sasc/biopet/tools/BiopetFlagstat.scala
View file @ e49f81e3
...@@ -211,7 +211,8 @@ object BiopetFlagstat extends ToolCommand { ...@@ -211,7 +211,8 @@ object BiopetFlagstat extends ToolCommand {
def summary: String = { def summary: String = {
val map = (for (t <- 0 until names.size) yield { val map = (for (t <- 0 until names.size) yield {
names(t) -> totalCounts(t) names(t) -> totalCounts(t)
}).toMap }).toMap ++ Map("Singletons" -> crossCounts(names.find(_._2 == "Mapped").map(_._1).getOrElse(-1))(names.find(_._2 == "MateUnmapped").map(_._1).getOrElse(-1))
)
ConfigUtils.mapToJson(map).spaces4 ConfigUtils.mapToJson(map).spaces4
} }
......
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