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} """) -- GitLab