diff --git a/nextflow_schema.json b/nextflow_schema.json index fe66308..f53e036 100644 --- a/nextflow_schema.json +++ b/nextflow_schema.json @@ -10,7 +10,10 @@ "type": "object", "fa_icon": "fas fa-terminal", "description": "Define where the pipeline should find input data and save output data.", - "required": ["input", "outdir"], + "required": [ + "input", + "outdir" + ], "properties": { "input": { "type": "string", @@ -173,7 +176,14 @@ "description": "Method used to save pipeline results to output directory.", "help_text": "The Nextflow `publishDir` option specifies which intermediate files should be saved to the output directory. This option tells the pipeline what method should be used to move these files. See [Nextflow docs](https://www.nextflow.io/docs/latest/process.html#publishdir) for details.", "fa_icon": "fas fa-copy", - "enum": ["symlink", "rellink", "link", "copy", "copyNoFollow", "move"], + "enum": [ + "symlink", + "rellink", + "link", + "copy", + "copyNoFollow", + "move" + ], "hidden": true }, "email_on_fail": { @@ -294,7 +304,10 @@ "shortread_clipmerge_tool": { "type": "string", "default": "fastp", - "enum": ["fastp", "adapterremoval"] + "enum": [ + "fastp", + "adapterremoval" + ] }, "shortread_clipmerge_skipadaptertrim": { "type": "boolean" @@ -335,7 +348,10 @@ "shortread_complexityfilter_prinseqplusplus_mode": { "type": "string", "default": "entropy", - "enum": ["entropy", "dust"] + "enum": [ + "entropy", + "dust" + ] }, "shortread_complexityfilter_prinseqplusplus_dustscore": { "type": "number", @@ -384,9 +400,6 @@ }, "malt_generatemegansummary": { "type": "boolean" - }, - "centrifuge_kreport": { - "type": "boolean" } } -} +} \ No newline at end of file