From 99fe8adb1bb023f3bcc032f554c2212d94adbe81 Mon Sep 17 00:00:00 2001 From: sofstam Date: Mon, 27 Feb 2023 13:49:02 +0100 Subject: [PATCH] Add helptext --- nextflow_schema.json | 12 +++++++----- 1 file changed, 7 insertions(+), 5 deletions(-) diff --git a/nextflow_schema.json b/nextflow_schema.json index 65d17b1..02c5688 100644 --- a/nextflow_schema.json +++ b/nextflow_schema.json @@ -520,25 +520,27 @@ "taxpasta_taxonomy_dir": { "type": "string", "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." + "help_text": "This arguments provides the path to the directory containing taxdump files. At least nodes.dmp and names.dmp are required. A merged.dmp file is optional. \n\nModifies tool parameter(s):\n-taxpasta: `--taxpasta_taxonomy_dir`" }, "taxpasta_add_name": { "type": "boolean", - "description": "Add the taxon name to the output." + "description": "Add the taxon name to the output.", + "help_text": "The standard output format of taxpasta is a two-column table including the read counts and the integer taxonomic ID. The taxon name can be added as additional information to the output table.\n\nModifies tool parameter(s):\n- taxpasta: `taxpasta_add_name`" }, "taxpasta_add_rank": { "type": "boolean", - "description": "Add the taxon rank to the output." + "description": "Add the taxon rank to the output.", + "help_text": "The standard output format of taxpasta is a two-column table including the read counts and the integer taxonomic ID. The taxon rank can be added as additional information to the output table.\n\nModifies tool parameter(s):\n- taxpasta: `taxpasta_add_rank`" }, "taxpasta_add_lineage": { "type": "boolean", "description": "Add the taxon's entire lineage to the output.", - "help_text": "These are taxon names separated by semi-colons. " + "help_text": "\nThe standard output format of taxpasta is a two-column table including the read counts and the integer taxonomic ID. The taxon's entire lineage with the taxon names separated by semi-colons can be added as additional information to the output table.\n\nModifies tool parameter(s):\n- taxpasta: `taxpasta_add_lineage`\n" }, "taxpasta_add_idlineage": { "type": "boolean", "description": "Add the taxon's entire lineage to the output.", - "help_text": "These are taxon identifiers separated by semi-colons. " + "help_text": "\nThe standard output format of taxpasta is a two-column table including the read counts and the integer taxonomic ID. The taxon's entire lineage with the taxon identifiers separated by semi-colons can be added as additional information to the output table.\n\nModifies tool parameter(s):\n- taxpasta: `taxpasta_add_idlineage`\n" } }, "fa_icon": "fas fa-chart-line"