From 569b324a8354fa44820a9c0334098e767c616b75 Mon Sep 17 00:00:00 2001
From: Rachel LEGENDRE <rachel.legendre@pasteur.fr>
Date: Thu, 23 Jun 2022 14:09:49 +0200
Subject: [PATCH] wildcard error in seacr rule
---
Snakefile | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/Snakefile b/Snakefile
index 7ceb771..254f1b9 100755
--- a/Snakefile
+++ b/Snakefile
@@ -726,7 +726,7 @@ if config["seacr"]["do"]:
seacr_output = os.path.join(analysis_dir, "06-PeakCalling/seacr/{{SAMPLE}}.{}.bed".format(config["seacr"]["threshold"]))
seacr_logs_std = os.path.join(analysis_dir, "06-PeakCalling/seacr/logs/{SAMPLE}_seacr_calling.out")
seacr_logs_err = os.path.join(analysis_dir, "06-PeakCalling/seacr/logs/{SAMPLE}_seacr_calling.err")
- final_output.extend(expand(seacr_output, SAMPLE=ALL_IP_PC))
+ final_output.extend(expand(seacr_output, SAMPLE=IP_ALL))
include: os.path.join(RULES, "seacr.rules")
@@ -739,7 +739,7 @@ if config["macs2"]["do"] or config["seacr"]["do"] :
if wildcards.CALLER == "macs2":
return expand(os.path.join(analysis_dir, "06-PeakCalling/{{CALLER}}/%s/{IP_REP}_peaks.{{MOD}}Peak" % (model_dir)), IP_REP=ALL_IP_PC)
elif wildcards.CALLER == "seacr":
- return expand(os.path.join(analysis_dir, "06-PeakCalling/{{CALLER}}/{IP_REP}.{{MOD}}.bed"), IP_REP=ALL_IP_PC)
+ return expand(os.path.join(analysis_dir, "06-PeakCalling/{{CALLER}}/{IP_REP}.{{MOD}}.bed"), IP_REP=IP_ALL)
stats_peakCalling_input = stats_pc_input
stats_peakCalling_csv = os.path.join(analysis_dir, "{CALLER}_{MOD}_Peaks_metrics_mqc.out")
--
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