diff --git a/flexiprep/src/main/java/nl/lumc/sasc/biopet/pipelines/flexiprep/Flexiprep.scala b/flexiprep/src/main/java/nl/lumc/sasc/biopet/pipelines/flexiprep/Flexiprep.scala
index 554101a2ddd505fbed3771014fa505aab1f5db22..1a0173d498df29d14214f8192ff10a8feb376d08 100644
--- a/flexiprep/src/main/java/nl/lumc/sasc/biopet/pipelines/flexiprep/Flexiprep.scala
+++ b/flexiprep/src/main/java/nl/lumc/sasc/biopet/pipelines/flexiprep/Flexiprep.scala
@@ -2,6 +2,7 @@ package nl.lumc.sasc.biopet.pipelines.flexiprep
 
 import nl.lumc.sasc.biopet.core._
 import nl.lumc.sasc.biopet.wrappers._
+import nl.lumc.sasc.biopet.wrappers.fastq._
 import org.broadinstitute.sting.queue.QScript
 import org.broadinstitute.sting.queue.extensions.gatk._
 import org.broadinstitute.sting.queue.extensions.picard._
diff --git a/biopet-framework/src/main/java/nl/lumc/sasc/biopet/wrappers/Cutadapt.scala b/flexiprep/src/main/java/nl/lumc/sasc/biopet/wrappers/fastq/Cutadapt.scala
similarity index 98%
rename from biopet-framework/src/main/java/nl/lumc/sasc/biopet/wrappers/Cutadapt.scala
rename to flexiprep/src/main/java/nl/lumc/sasc/biopet/wrappers/fastq/Cutadapt.scala
index 0e2ea01747f8ed5a69f1161226c912e9ebeb4063..b9bfbaff26ea9f1946e1caade5dbf99498aebc5f 100644
--- a/biopet-framework/src/main/java/nl/lumc/sasc/biopet/wrappers/Cutadapt.scala
+++ b/flexiprep/src/main/java/nl/lumc/sasc/biopet/wrappers/fastq/Cutadapt.scala
@@ -1,4 +1,4 @@
-package nl.lumc.sasc.biopet.wrappers
+package nl.lumc.sasc.biopet.wrappers.fastq
 
 import nl.lumc.sasc.biopet.core._
 import org.broadinstitute.sting.queue.function.CommandLineFunction
diff --git a/biopet-framework/src/main/java/nl/lumc/sasc/biopet/wrappers/Fastqc.scala b/flexiprep/src/main/java/nl/lumc/sasc/biopet/wrappers/fastq/Fastqc.scala
similarity index 100%
rename from biopet-framework/src/main/java/nl/lumc/sasc/biopet/wrappers/Fastqc.scala
rename to flexiprep/src/main/java/nl/lumc/sasc/biopet/wrappers/fastq/Fastqc.scala
diff --git a/biopet-framework/src/main/java/nl/lumc/sasc/biopet/wrappers/Sickle.scala b/flexiprep/src/main/java/nl/lumc/sasc/biopet/wrappers/fastq/Sickle.scala
similarity index 100%
rename from biopet-framework/src/main/java/nl/lumc/sasc/biopet/wrappers/Sickle.scala
rename to flexiprep/src/main/java/nl/lumc/sasc/biopet/wrappers/fastq/Sickle.scala