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Commit 1395457c authored by Peter van 't Hof's avatar Peter van 't Hof Committed by bow
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Fix on output variable

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flexiprep/src/main/scala/nl/lumc/sasc/biopet/function/fastq/Fastqc.scala
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...@@ -62,7 +62,7 @@ object Fastqc { ...@@ -62,7 +62,7 @@ object Fastqc {
if (filename.endsWith(".gzip")) filename = filename.substring(0, filename.size - 5) 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(".fastq")) filename = filename.substring(0, filename.size - 6)
//if (filename.endsWith(".fq")) filename = filename.substring(0,filename.size - 3) //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 fastqcCommand.afterGraph
return fastqcCommand return fastqcCommand
} }
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