From baafabac4e1746bf8766719bb115df0c8d9d2cba Mon Sep 17 00:00:00 2001 From: Alexis Mergez <alexis.mergez@inrae.fr> Date: Fri, 9 Feb 2024 15:01:40 +0100 Subject: [PATCH] Update Snakefile Removed og file creation --- Snakefile | 3 --- 1 file changed, 3 deletions(-) diff --git a/Snakefile b/Snakefile index c0e1e7b..0ec2a67 100644 --- a/Snakefile +++ b/Snakefile @@ -78,7 +78,6 @@ rule pggb_on_chr: gzi="data/chrInputs/{chromosome}.fa.gz.gzi" output: gfa="data/chrGraphs/{chromosome}.gfa" - og="data/chrGraphs/{chromosome}.gfa" threads: 16 params: pggb=config['pggb.params'], @@ -94,8 +93,6 @@ rule pggb_on_chr: tee {log.cmd} echo $(ls data/chrGraphs/{wildcards.chromosome}) mv data/chrGraphs/{wildcards.chromosome}/*.gfa {output.gfa} - apptainer run --app odgi {params.apppath}/PanGeTools.sif \ - build -s -O -t {threads} -P -g {output.gfa} -o {output.og} """ def availGraphs(wildcards): -- GitLab