From 096d8a0ecfddd09d602854f10271c8f72ade284d Mon Sep 17 00:00:00 2001
From: Peter van 't Hof <p.j.van_t_hof@lumc.nl>
Date: Sun, 27 Jul 2014 10:44:55 +0200
Subject: [PATCH] Fix on output variable
---
.../main/scala/nl/lumc/sasc/biopet/function/fastq/Fastqc.scala | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/flexiprep/src/main/scala/nl/lumc/sasc/biopet/function/fastq/Fastqc.scala b/flexiprep/src/main/scala/nl/lumc/sasc/biopet/function/fastq/Fastqc.scala
index cc48a1682..ca30614d1 100644
--- a/flexiprep/src/main/scala/nl/lumc/sasc/biopet/function/fastq/Fastqc.scala
+++ b/flexiprep/src/main/scala/nl/lumc/sasc/biopet/function/fastq/Fastqc.scala
@@ -62,7 +62,7 @@ object Fastqc {
if (filename.endsWith(".gzip")) filename = filename.substring(0, filename.size - 5)
if (filename.endsWith(".fastq")) filename = filename.substring(0, filename.size - 6)
//if (filename.endsWith(".fq")) filename = filename.substring(0,filename.size - 3)
- fastqcCommand.jobOutputFile = new File(outDir + "/" + filename + "_fastqc.zip")
+ fastqcCommand.output = new File(outDir + "/" + filename + "_fastqc.zip")
fastqcCommand.afterGraph
return fastqcCommand
}
--
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