Fixed qc stats in report

public/flexiprep/src/main/resources/nl/lumc/sasc/biopet/pipelines/flexiprep/flexiprepBaseSummary.ssp

@@ -129,7 +129,7 @@
                         #if (read == "R2") </tr><tr> #end
                         #{
                             val beforeTotal = summary.getLibraryValue(sample, libId, "flexiprep", "stats", "seqstat_" + read, "bases", "num_total").getOrElse(0).toString.toLong
-                            val afterTotal = summary.getLibraryValue(sample, libId, "flexiprep", "stats", "seqstat_" + read + "_after", "bases", "num_total").getOrElse(0).toString.toLong
+                            val afterTotal = summary.getLibraryValue(sample, libId, "flexiprep", "stats", "seqstat_" + read + "_qc", "bases", "num_total").getOrElse(0).toString.toLong
                         }#
                         <td>${read}</td>
                         <td>${beforeTotal}</td>

public/flexiprep/src/main/resources/nl/lumc/sasc/biopet/pipelines/flexiprep/flexiprepReadSummary.ssp

@@ -133,7 +133,7 @@
                         #if (read == "R2") </tr><tr> #end
                         #{
                             val beforeTotal = summary.getLibraryValue(sample, libId, "flexiprep", "stats", "seqstat_" + read, "reads", "num_total")
-                            val afterTotal = summary.getLibraryValue(sample, libId, "flexiprep", "stats", "seqstat_" + read + "_after", "reads", "num_total")
+                            val afterTotal = summary.getLibraryValue(sample, libId, "flexiprep", "stats", "seqstat_" + read + "_qc", "reads", "num_total")
                             val clippingDiscardedToShort = summary.getLibraryValue(sample, libId, "flexiprep", "stats", "clipping_" + read, "num_reads_discarded_too_short").getOrElse(0).toString.toLong
                             val clippingDiscardedToLong = summary.getLibraryValue(sample, libId, "flexiprep", "stats", "clipping_" + read, "num_reads_discarded_too_long").getOrElse(0).toString.toLong
                             val trimmingDiscarded = summary.getLibraryValue(sample, libId, "flexiprep", "stats", "trimming", "num_reads_discarded_" + read).getOrElse(0).toString.toLong

public/flexiprep/src/main/scala/nl/lumc/sasc/biopet/pipelines/flexiprep/FlexiprepReport.scala

@@ -95,7 +95,7 @@ object FlexiprepReport extends ReportBuilder {
     def getLine(summary: Summary, sample: String, lib: String): String = {
       val beforeTotal = new SummaryValue(List("flexiprep", "stats", "seqstat_" + read, "reads", "num_total"),
         summary, Some(sample), Some(lib)).value.getOrElse(0).toString.toLong
-      val afterTotal = new SummaryValue(List("flexiprep", "stats", "seqstat_" + read + "_after", "reads", "num_total"),
+      val afterTotal = new SummaryValue(List("flexiprep", "stats", "seqstat_" + read + "_qc", "reads", "num_total"),
         summary, Some(sample), Some(lib)).value.getOrElse(0).toString.toLong
       val clippingDiscardedToShort = new SummaryValue(List("flexiprep", "stats", "clipping_" + read, "num_reads_discarded_too_short"),
         summary, Some(sample), Some(lib)).value.getOrElse(0).toString.toLong
@@ -152,7 +152,7 @@ object FlexiprepReport extends ReportBuilder {
     def getLine(summary: Summary, sample: String, lib: String): String = {
       val beforeTotal = new SummaryValue(List("flexiprep", "stats", "seqstat_" + read, "bases", "num_total"),
         summary, Some(sample), Some(lib)).value.getOrElse(0).toString.toLong
-      val afterTotal = new SummaryValue(List("flexiprep", "stats", "seqstat_" + read + "_after", "bases", "num_total"),
+      val afterTotal = new SummaryValue(List("flexiprep", "stats", "seqstat_" + read + "_qc", "bases", "num_total"),
         summary, Some(sample), Some(lib)).value.getOrElse(0).toString.toLong
 
       val sb = new StringBuffer()