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Resolve "Add mapping and trimming"

Merged Venkat Malladi requested to merge 3-mapping-trimming into master
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@@ -114,6 +114,7 @@ process alignReads {
output:
set sampleId, file('*.bam'), biosample, factor, treatment, replicate, controlId into mappedReads
set file('*.srt.bam.flagstat.qc')
script: