Commit 72b01822 authored by Peter van 't Hof's avatar Peter van 't Hof
Browse files

Added default output file

parent 558d488a
......@@ -37,7 +37,7 @@ class Fastqc(val root: Configurable) extends BiopetCommandLineFunction {
@Input(doc = "Fastq file", shortName = "FQ")
var fastqfile: File = null
@Output(doc = "Output", shortName = "out")
@Output(doc = "Output", shortName = "out", required = true)
var output: File = null
executable = config("exe", default = "fastqc")
......@@ -54,6 +54,7 @@ class Fastqc(val root: Configurable) extends BiopetCommandLineFunction {
/** Sets contaminants and adapters when not yet set */
override def beforeGraph {
this.jobOutputFile = new File(output.getParentFile, ".fastqc.out")
this.preProcesExecutable
val fastqcDir = new File(executable).getParent
......
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