From 0c17b301cf59d7f914e631aa5e7f4d054054ad08 Mon Sep 17 00:00:00 2001
From: Blaise Li <blaise.li__git@nsup.org>
Date: Thu, 30 Jul 2020 16:26:09 +0200
Subject: [PATCH] Fixing access to params.

---
 smwrappers/map_on_genome/wrapper.py | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/smwrappers/map_on_genome/wrapper.py b/smwrappers/map_on_genome/wrapper.py
index dbe9a91..61270ab 100644
--- a/smwrappers/map_on_genome/wrapper.py
+++ b/smwrappers/map_on_genome/wrapper.py
@@ -53,8 +53,8 @@ shell(mapping_command(snakemake.params.aligner))
 
 if hasattr(snakemake.output, "methods"):
     shell(f"cp {snakemake.input.methods} {snakemake.output.methods}")
-    methods = f"The {params.read_name} were mapped on the {params.genome_name} using {aligner} (version ${{{{v}}}}) with options {snakemake.params.settings}"
+    methods = f"The {snakemake.params.read_name} were mapped on the {snakemake.params.genome_name} using {snakemake.params.aligner} (version ${{{{v}}}}) with options {snakemake.params.settings}"
     shell(f"""
-        v=$({aligner} --version | head -1 | awk '{{print $3}}')
+        v=$({snakemake.params.aligner} --version | head -1 | awk '{{print $3}}')
         echo "{methods}" >> {snakemake.output.methods}
 """)
-- 
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