From 07045a46cf5231a4a92078e376cfe5f518c81e2c Mon Sep 17 00:00:00 2001 From: j23414 Date: Tue, 28 Mar 2023 11:42:48 -0700 Subject: [PATCH] fix: remove wildcards where unnecessary Since config variables are consistent across all serotypes, wildcards are unnecessary. Co-authored-by: Thomas Sibley --- Snakefile | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/Snakefile b/Snakefile index 486f006d..cd3a0adb 100644 --- a/Snakefile +++ b/Snakefile @@ -89,7 +89,7 @@ rule wrangle_metadata: output: metadata="results/wrangled_metadata_{serotype}.tsv", params: - strain_id=lambda w: config.get("strain_id_field", "strain"), #accession + strain_id=config.get("strain_id_field", "strain"), #accession shell: """ csvtk -t rename -f strain -n strain_original {input.metadata} \ @@ -313,7 +313,7 @@ rule final_strain_name: auspice_json="auspice/dengue_{serotype}.json", root_sequence="auspice/dengue_{serotype}_root-sequence.json", params: - display_strain_field=lambda w: config.get("display_strain_field", "strain"), + display_strain_field=config.get("display_strain_field", "strain"), shell: """ python3 bin/set_final_strain_name.py \