Commit 207613f6 authored by Peter van 't Hof's avatar Peter van 't Hof

Added check to output files of flexiprep also

parent 3f86deaf
......@@ -265,6 +265,17 @@ class Flexiprep(val root: Configurable) extends QScript with SummaryQScript with
}
}
val validateFastq = new ValidateFastq(this)
validateFastq.r1Fastq = fastqR1Qc
validateFastq.r2Fastq = fastqR2Qc
validateFastq.jobOutputFile = new File(outputDir, ".validate_fastq.qc.log.out")
add(validateFastq)
val checkValidateFastq = new CheckValidateFastq
checkValidateFastq.inputLogFile = validateFastq.jobOutputFile
checkValidateFastq.jobOutputFile = new File(outputDir, ".check.validate_fastq.qc.log.out")
add(checkValidateFastq)
outputFiles += ("output_R1_gzip" -> fastqR1Qc)
if (paired) outputFiles += ("output_R2_gzip" -> fastqR2Qc.get)
......
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