bactopia-merge-schemas
Builds a Nextflow Schema and/or Nextflow config for a given workflow.
Usage
bactopia-merge-schemas UNKNOWN [OPTIONS]
Arguments
| Argument | Type | Required | Description |
|---|---|---|---|
UNKNOWN | UNPROCESSED | No |
Required Options
| Option | Type | Default | Description |
|---|---|---|---|
--bactopia-path | STRING | Directory where Bactopia repository is stored | |
--wf | STRING | The workflow to create a nextflow_schema.json for |
Output Options
| Option | Type | Default | Description |
|---|---|---|---|
--outdir | PATH | . | Directory to write output files to |
--force | BOOL | false | Overwrite existing output files |
Additional Options
| Option | Type | Default | Description |
|---|---|---|---|
--verbose | BOOL | false | Print debug related text |
--silent | BOOL | false | Only critical errors will be printed |
--version, -V | BOOL | false | Show the version and exit. |