From 9de6b052a804251446f5c084cc342004b140817f Mon Sep 17 00:00:00 2001
From: BIOPZ-Iborra de Toledo Paula <paula.iborradetoledo@unibas.ch>
Date: Mon, 18 May 2020 18:40:07 +0200
Subject: [PATCH] Delete run_pipeline.sh
---
run_pipeline.sh | 25 -------------------------
1 file changed, 25 deletions(-)
delete mode 100755 run_pipeline.sh
diff --git a/run_pipeline.sh b/run_pipeline.sh
deleted file mode 100755
index 4096e76..0000000
--- a/run_pipeline.sh
+++ /dev/null
@@ -1,25 +0,0 @@
-# set -e
-
-mkdir -p test/logs/cluster_log
-mkdir -p test/logs/local_log
-
-snakemake \
--p \
--s Snakefile \
---use-singularity \
---singularity-args "--no-home --bind ${PWD},/scicore/home/zavolan/devagy74/projects/filter-anno/" \
---cores 256 \
---local-cores 10 \
---rerun-incomplete \
---configfile config.yaml \
---jobscript jobscript.sh \
---cluster-config cluster.json \
---cluster "sbatch \
- --cpus-per-task={cluster.threads} \
- --mem={cluster.mem} \
- --qos={cluster.queue} \
- --time={cluster.time} \
- -o {params.cluster_log} \
- -p scicore \
- --export=JOB_NAME={rule} \
- --open-mode=append"
\ No newline at end of file
--
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