Unverified Commit e0a12c31 authored by Xavi Moreno's avatar Xavi Moreno Committed by GitHub
Browse files

Update zUMIs.sh 

This is a small optimization suggestion. There is no need to use `cat` to pipe `head` since `head` can read the file and stop when reaching the number of lines.
parent 60f7965c

zUMIs.sh

+1 −1
Original line number Diff line number Diff line
@@ -247,7 +247,7 @@ if [[ "${whichStage}" == "Filtering" ]] ; then 
      pref=$(basename ${f} .gz)

      l=$(ls ${tmpMerge}${pref}* | sed "s|${tmpMerge}${pref}||" | sed 's/.gz//')

  else

      cat ${f} | head -n 4000000 > ${tmpMerge}/${project}.1mio.check.fq

      head -n 4000000 ${f} > ${tmpMerge}/${project}.1mio.check.fq

      smallsize=$(stat --printf="%s" ${tmpMerge}/${project}.1mio.check.fq)

      rm ${tmpMerge}/${project}.1mio.check.fq

      nreads=$(expr ${fullsize} \* 1000000 / ${smallsize})

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