diff --git a/workflow/scripts/splitStudy.sh b/workflow/scripts/splitStudy.sh index 6552e7de2cfe3b5dfabf9cfe82b5a44bc48b3431..be4259c2225b72e1e789b8c01a184930b5b86819 100644 --- a/workflow/scripts/splitStudy.sh +++ b/workflow/scripts/splitStudy.sh @@ -10,7 +10,7 @@ python3 ./workflow/scripts/splitStudy.py -s $1 # run pipeline on replicate RIDs in parallel module load nextflow/20.01.0 module load singularity/3.5.3 -while read repRID; do echo ${repRID}; sleep 10; done < "$1_studyRID.csv" | xargs -P 25 -I {} nextflow run workflow/rna-seq.nf --repRID {} +while read repRID; do echo ${repRID}; sleep 10; done < "$1_studyRID.csv" | xargs -P 25 -I {} nextflow -q run workflow/rna-seq.nf --repRID {} # cleanup study RID files rm $1_studyRID.json