From 835656b17aaf755eb5ed7aca7eab99aeceb0e9ba Mon Sep 17 00:00:00 2001
From: Laura Cook <l.cook2@student.unimelb.edu.au>
Date: Thu, 3 Sep 2020 10:32:22 +1000
Subject: [PATCH] added -snakefile flag to command to call a specific snakefile

---
 mouse/README.md | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/mouse/README.md b/mouse/README.md
index bc3a214..20b14fb 100644
--- a/mouse/README.md
+++ b/mouse/README.md
@@ -39,7 +39,7 @@ conda activate chip
 Run pipeline with the following command:
 
 ```
-snakemake -j 6 --cluster-config envs/cluster.json --cluster "sbatch -A {cluster.account} -t {cluster.time} -p {cluster.partition} --nodes {cluster.nodes} --ntasks {cluster.ntasks} --mem {cluster.mem}" &
+snakemake --snakefile [snakemake file] -j 6 --cluster-config envs/cluster.json --cluster "sbatch -A {cluster.account} -t {cluster.time} -p {cluster.partition} --nodes {cluster.nodes} --ntasks {cluster.ntasks} --mem {cluster.mem}" &
 ```
 
 Cluster configuration file: configs/cluster.json\
-- 
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