diff --git a/zUMIs.sh b/zUMIs.sh index dd54654..2907733 100755 --- a/zUMIs.sh +++ b/zUMIs.sh @@ -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})