diff --git a/bammetrics/src/main/resources/nl/lumc/sasc/biopet/pipelines/bammetrics/clipping.ssp b/bammetrics/src/main/resources/nl/lumc/sasc/biopet/pipelines/bammetrics/clipping.ssp index 5a25be35b64bafcd996d6514c11df597325289d6..19f7edd3f8d0cae32fcf720324da33ee13f2c4da 100644 --- a/bammetrics/src/main/resources/nl/lumc/sasc/biopet/pipelines/bammetrics/clipping.ssp +++ b/bammetrics/src/main/resources/nl/lumc/sasc/biopet/pipelines/bammetrics/clipping.ssp @@ -87,7 +87,7 @@ val prefixPath = List("samples", sample) ::: (if (libId.isEmpty) Nil else List("libraries", libId)) ::: List("bammetrics", "stats") val fieldValues = for (field <- fields) yield { - summary.getValue((prefixPath ::: List("bamstats", "clipping", "general", field.toUpperCase)):_*).getOrElse("N/A") + summary.getValue((prefixPath ::: List("bamstats", "clipping", "general", field)):_*).getOrElse("N/A") } }# #for (value <- fieldValues) diff --git a/bammetrics/src/main/resources/nl/lumc/sasc/biopet/pipelines/bammetrics/mappingQuality.ssp b/bammetrics/src/main/resources/nl/lumc/sasc/biopet/pipelines/bammetrics/mappingQuality.ssp index fd651d002fce847338a8b2cf100050e9ced814a3..5178069112899adb23bb81f39da2d6c872b715b0 100644 --- a/bammetrics/src/main/resources/nl/lumc/sasc/biopet/pipelines/bammetrics/mappingQuality.ssp +++ b/bammetrics/src/main/resources/nl/lumc/sasc/biopet/pipelines/bammetrics/mappingQuality.ssp @@ -87,7 +87,7 @@ val prefixPath = List("samples", sample) ::: (if (libId.isEmpty) Nil else List("libraries", libId)) ::: List("bammetrics", "stats") val fieldValues = for (field <- fields) yield { - summary.getValue((prefixPath ::: List("bamstats", "clipping", "general", field.toUpperCase)):_*).getOrElse("N/A") + summary.getValue((prefixPath ::: List("bamstats", "mapping_quality", "general", field)):_*).getOrElse("N/A") } }# #for (value <- fieldValues)