Fixed report

gears/src/main/resources/nl/lumc/sasc/biopet/pipelines/gears/krakenKrona.ssp

@@ -10,12 +10,13 @@
 <%@ var libId: Option[String] = None %>
 <%@ var args: Map[String, Any] %>
 <%@ var outputDir: File %>
-<%@ var summaryTag: String = "krakenreport" %>
+<%@ var summaryStatsTag: String = "krakenreport" %>
+<%@ var summaryModuleTag: String = "gearskraken" %>
 
 <%
     val summaries = if (sampleId.isEmpty && libId.isEmpty) {
-        summary.getSampleValues("gearskraken", "stats", summaryTag).map(x => x._1 -> x._2.get.asInstanceOf[Map[String, Any]])
-    } else summary.getValue(sampleId, libId, "gearskraken", "stats", summaryTag).map(sampleId.get -> _.asInstanceOf[Map[String, Any]]).toList.toMap
+        summary.getSampleValues(summaryModuleTag, "stats", summaryStatsTag).map(x => x._1 -> x._2.get.asInstanceOf[Map[String, Any]])
+    } else summary.getValue(sampleId, libId, summaryModuleTag, "stats", summaryStatsTag).map(sampleId.get -> _.asInstanceOf[Map[String, Any]]).toList.toMap
 
     val tempFile = File.createTempFile("krona.", ".xml")
     tempFile.deleteOnExit()

gears/src/main/scala/nl/lumc/sasc/biopet/pipelines/gears/GearsReport.scala

@@ -47,7 +47,7 @@ object GearsReport extends MultisampleReportBuilder {
     ReportPage(
       (if (centrifugeExecuted) List("Centriguge analysis" -> ReportPage(List(), List(
         "Krona plot" -> ReportSection("/nl/lumc/sasc/biopet/pipelines/gears/krakenKrona.ssp"
-        )), Map("summaryTag" -> "centriguge_report")))
+        )), Map("summaryStatsTag" -> "centrifuge_report", "summaryModuleTag" -> "gearscentrifuge")))
       else Nil) ::: (if (krakenExecuted) List("Kraken analysis" -> ReportPage(List(), List(
         "Krona plot" -> ReportSection("/nl/lumc/sasc/biopet/pipelines/gears/krakenKrona.ssp"
         )), Map()))