bactopia-atb-formatter
Restructure All-the-Bacteria assemblies to allow usage with Bactopia Tools
Usage
bactopia-atb-formatter [OPTIONS]
Required Options
| Option | Type | Default | Description |
|---|---|---|---|
--path, -p | STRING | Directory where ATB assemblies are stored |
Bactopia Directory Structure Options
| Option | Type | Default | Description |
|---|---|---|---|
--bactopia-dir, -b | STRING | bactopia | The path you would like to place bactopia structure |
--publish-mode, -m | CHOICE (symlink, copy) | symlink | Specifies how assemblies will be saved in the Bactopia directory |
--recursive, -r | BOOL | false | Traverse recursively through provided path |
--extension, -e | STRING | .fa | The extension of the FASTA 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. |