diff --git a/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/core/BiopetQScript.scala b/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/core/BiopetQScript.scala
index 70ad6cca755951d5766860ffa91b17a35df4736e..ec67c61677941b4aa183bf70e1dc8aa412550010 100644
--- a/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/core/BiopetQScript.scala
+++ b/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/core/BiopetQScript.scala
@@ -29,6 +29,7 @@ trait BiopetQScript extends Configurable {
     biopetScript
     val configReport = globalConfig.getReport
     val configReportFile = new File(outputDir + qSettings.runName + ".configreport.txt")
+    configReportFile.getParentFile.mkdir
     val writer = new PrintWriter(configReportFile)
     writer.write(configReport)
     writer.close()