Commit 7de7e6ee authored by Sander Bollen's avatar Sander Bollen
Browse files

Merge branch 'fix-BIOPET-317' into 'develop'

Fixing BIOPET-317



See merge request !489
parents ba0deb1c 81188921
......@@ -269,11 +269,15 @@ class Flexiprep(val root: Configurable) extends QScript with SummaryQScript with
if (fastq_R1.length > 1) {
val zcat = new Zcat(this)
zcat.input = fastq_R1
add(zcat | new Gzip(this) > fastqR1Qc)
val cmdR1 = zcat | new Gzip(this) > fastqR1Qc
cmdR1.isIntermediate = !keepQcFastqFiles
add(cmdR1)
if (paired) {
val zcat = new Zcat(this)
zcat.input = fastq_R2
add(zcat | new Gzip(this) > fastqR2Qc.get)
val cmdR2 = zcat | new Gzip(this) > fastqR2Qc.get
cmdR2.isIntermediate = !keepQcFastqFiles
add(cmdR2)
}
}
......
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