Commit 9d40cb55 authored by Peter van 't Hof's avatar Peter van 't Hof
Browse files

Fix on end files on flexiprep, not intermediate anymore

parent de30ed59
......@@ -224,8 +224,8 @@ class Flexiprep(val root: Configurable) extends QScript with BiopetQScript {
val R1 = new File(outputDir + R1_name + ".qc" + R1_ext + ".gz")
val R2 = new File(outputDir + R2_name + ".qc" + R2_ext + ".gz")
add(Gzip(this, fastq_R1, R1), true)
if (paired) add(Gzip(this, fastq_R2, R2), true)
add(Gzip(this, fastq_R1, R1))
if (paired) add(Gzip(this, fastq_R2, R2))
outputFiles += ("output_R1" -> R1)
if (paired) outputFiles += ("output_R2" -> R2)
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