From e96ca0bc1d055641c1867be579b05d3263b0d42d Mon Sep 17 00:00:00 2001 From: Michael Roach Date: Tue, 17 Dec 2024 14:19:00 +1030 Subject: [PATCH] BUG: longread fix --- hecatomb/snakemake/workflow/rules/assembly/longreads.smk | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/hecatomb/snakemake/workflow/rules/assembly/longreads.smk b/hecatomb/snakemake/workflow/rules/assembly/longreads.smk index 17a7a82..63315b7 100644 --- a/hecatomb/snakemake/workflow/rules/assembly/longreads.smk +++ b/hecatomb/snakemake/workflow/rules/assembly/longreads.smk @@ -34,7 +34,7 @@ rule lr_cross_assembly: rule canu_sample_assembly: """Per-sample assembly with canu; also works for unmapped rescue reads""" input: - os.path.join(dir["out"]["trim"], "{sample}" + "_RS" + config["args"]["hostStr"] + ".fastq.gz") + os.path.join(dir["out"]["trim"], "{sample}" + "_S" + config["args"]["hostStr"] + ".fastq.gz") output: ctg = os.path.join(dir["out"]["assembly"],"{sample}","{sample}.contigs.fasta"), ctgq = os.path.join(dir["out"]["assembly"],"{sample}","{sample}.contigs.uniq.fasta"),