From b8dd09594095edd29ee47048fa48a43947ac3a31 Mon Sep 17 00:00:00 2001 From: Fredrik Boulund Date: Thu, 4 Nov 2021 14:40:48 +0100 Subject: [PATCH] Try to avoid DAG generation issues in CircleCI testing --- rules/taxonomic_profiling/strainphlan.smk | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/rules/taxonomic_profiling/strainphlan.smk b/rules/taxonomic_profiling/strainphlan.smk index 1b9559b..277a4ac 100755 --- a/rules/taxonomic_profiling/strainphlan.smk +++ b/rules/taxonomic_profiling/strainphlan.smk @@ -16,7 +16,7 @@ if config["strain_level_profiling"]["strainphlan"]: err_message += "If you do not want to run MetaPhlAn or StrainPhlAn, set 'metaphlan: False' and 'strainphlan: false' in config.yaml" raise WorkflowError(err_message) if not spa_config["clade_of_interest"]: - available_clades=f"{LOGDIR}/strainphlan/available_clades.txt", + available_clades=f"{OUTDIR}/strainphlan/available_clades.txt", all_outputs.append(available_clades) user_messages.warn("Clade of interest not specified in strainphlan section of config.yaml.") user_messages.warn("Based on your samples strainphlan will create a list of available clades in output/strainphlan/available_clades.txt")