From 2a494f046609248db6ecaf83ea87dc2f86322b2e Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Wed, 12 Aug 2020 21:58:30 -0500
Subject: [PATCH] Put 10sec delay between study launch + 25 parallel
---
README.md | 2 +-
workflow/scripts/splitStudy.sh | 2 +-
2 files changed, 2 insertions(+), 2 deletions(-)
diff --git a/README.md b/README.md
index 23b24d8..399f0da 100644
--- a/README.md
+++ b/README.md
@@ -62,7 +62,7 @@ To run a set of replicates from study RID:
------------------------------------------
Run in repo root dir:
* `sh workflow/scripts/splitStudy.sh [studyRID]`
-It will run in parallel in batches of 5 replicatesRID
+It will run in parallel in batches of 25 replicatesRID with 10 second delays between launches.
diff --git a/workflow/scripts/splitStudy.sh b/workflow/scripts/splitStudy.sh
index a64b6d9..6552e7d 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}; done < "$1_studyRID.csv" | xargs -P 5 -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 run workflow/rna-seq.nf --repRID {}
# cleanup study RID files
rm $1_studyRID.json
--
GitLab