From 6e0d4a52e2cc32cdccfc41b8970a427d1e34ceaa Mon Sep 17 00:00:00 2001
From: Chang Ye <yech1990@gmail.com>
Date: Thu, 25 Aug 2022 22:21:57 -0500
Subject: [PATCH] support slurm, WIP

---
 sacseq | 6 +++++-
 1 file changed, 5 insertions(+), 1 deletion(-)

diff --git a/sacseq b/sacseq
index d014c13..30774e6 100755
--- a/sacseq
+++ b/sacseq
@@ -60,4 +60,8 @@ if [ "$#" != 0 ]; then
   shift  # $EOL
 fi
 
-FLASK_ENV=development snakemake -q --rerun-incomplete -s /opt/pipeline/Snakefile -j ${cores} --configfiles /opt/pipeline/config.yaml ${conf} --profile ${profile}
+if [ -n ${profile} ]; then
+  FLASK_ENV=development snakemake -q --rerun-incomplete -s /opt/pipeline/Snakefile -j ${cores} --configfiles /opt/pipeline/config.yaml ${conf} --profile ${profile}
+else
+  FLASK_ENV=development snakemake -q --rerun-incomplete -s /opt/pipeline/Snakefile -j ${cores} --configfiles /opt/pipeline/config.yaml ${conf}
+fi