From 61da844e43e815ffc57e23b39f3a6dbfe5c9422e Mon Sep 17 00:00:00 2001
From: Peter van 't Hof <p.j.van_t_hof@lumc.nl>
Date: Tue, 29 Dec 2015 14:17:55 +0100
Subject: [PATCH] Fixed output files
---
.../nl/lumc/sasc/biopet/pipelines/gears/CombineReads.scala | 6 +++---
1 file changed, 3 insertions(+), 3 deletions(-)
diff --git a/public/gears/src/main/scala/nl/lumc/sasc/biopet/pipelines/gears/CombineReads.scala b/public/gears/src/main/scala/nl/lumc/sasc/biopet/pipelines/gears/CombineReads.scala
index 608afa3c0..f8cddedfd 100644
--- a/public/gears/src/main/scala/nl/lumc/sasc/biopet/pipelines/gears/CombineReads.scala
+++ b/public/gears/src/main/scala/nl/lumc/sasc/biopet/pipelines/gears/CombineReads.scala
@@ -28,15 +28,15 @@ class CombineReads(val root: Configurable) extends QScript with SummaryQScript w
private lazy val forwardPrimers: List[String] = config("forward_primers", default = Nil)
private lazy val reversePrimers: List[String] = config("reverse_primers", default = Nil)
- def combinedFastq: File = if ((forwardPrimers :: reversePrimers).nonEmpty)
+ def combinedFastq: File = if ((forwardPrimers ::: reversePrimers).nonEmpty)
swapExt(outputDir, flash.combinedFastq, ".fastq.gz", ".clip.fastq.gz")
else flash.combinedFastq
- def notCombinedR1Fastq: File = if ((forwardPrimers :: reversePrimers).nonEmpty)
+ def notCombinedR1Fastq: File = if ((forwardPrimers ::: reversePrimers).nonEmpty)
swapExt(outputDir, flash.notCombinedR1, ".fastq.gz", ".clip.fastq.gz")
else flash.notCombinedR1
- def notCombinedR2Fastq: File = if ((forwardPrimers :: reversePrimers).nonEmpty)
+ def notCombinedR2Fastq: File = if ((forwardPrimers ::: reversePrimers).nonEmpty)
swapExt(outputDir, flash.notCombinedR2, ".fastq.gz", ".clip.fastq.gz")
else flash.notCombinedR2
--
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