From 10fc6b260d2f9263586b9421c1be5215d98e9f37 Mon Sep 17 00:00:00 2001 From: Magnus Wahlberg Date: Thu, 7 Dec 2023 15:01:17 +0100 Subject: [PATCH] Rename to src_fasta_file --- pipelines/preprocessing/preprocess.snakefile | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/pipelines/preprocessing/preprocess.snakefile b/pipelines/preprocessing/preprocess.snakefile index e17375f7..9d946b8f 100644 --- a/pipelines/preprocessing/preprocess.snakefile +++ b/pipelines/preprocessing/preprocess.snakefile @@ -18,7 +18,7 @@ reference_dir = working_dir / config["reference_dir_name"] preprocess_threads = config["preprocess_threads"] -fasta_file = reference_dir / config["reference_fasta_file"] +src_fasta_file = reference_dir / config["reference_fasta_file"] fasta_file_uppercase = reference_dir / f'{Path(config["reference_fasta_file"]).stem}_upper.fa' fasta_index_file = f"{fasta_file_uppercase}.fai" @@ -85,7 +85,7 @@ rule index_fasta: rule uppercase_fast: input: - fasta=fasta_file, + fasta=src_fasta_file, output: fasta_file_uppercase, shell: