diff --git a/conf/modules.config b/conf/modules.config index 10ce34d..2b65798 100644 --- a/conf/modules.config +++ b/conf/modules.config @@ -546,7 +546,7 @@ process { ext.args = { [ "-p ${meta.tool} -o ${meta.tool}_${meta.id}.${params.standardisation_taxpasta_format}", - params.taxpasta_add_taxonomy ? "--taxonomy" : "", + params.taxpasta_taxonomy_files ? "--taxonomy" : "", ].join(' ').trim() } publishDir = [ diff --git a/nextflow.config b/nextflow.config index 18e706a..30f2498 100644 --- a/nextflow.config +++ b/nextflow.config @@ -157,7 +157,7 @@ params { // profile standardisation run_profile_standardisation = false standardisation_taxpasta_format = 'tsv' - taxpasta_add_taxonomy = false + taxpasta_taxonomy_files = false standardisation_motus_generatebiom = false } diff --git a/nextflow_schema.json b/nextflow_schema.json index 314b485..78260a5 100644 --- a/nextflow_schema.json +++ b/nextflow_schema.json @@ -517,7 +517,7 @@ "description": "The desired output format.", "enum": ["tsv", "csv", "arrow", "parquet", "biom"] }, - "taxpasta_add_taxonomy": { + "taxpasta_taxonomy_files": { "type": "boolean", "description": "The path to a directory containing taxdump files.", "help_text": "At least nodes.dmp and names.dmp are required. A merged.dmp file is optional."