usage: pubmlst_list [-h] [--pattern PATTERN] [--exclude_pattern EXCLUDE_PATTERN] [--names_only] [--base-url BASE_URL]
optional arguments:
-h, --help show this help message and exit
--pattern PATTERN, -p PATTERN
regex pattern to filter scheme names
--exclude_pattern EXCLUDE_PATTERN, -e EXCLUDE_PATTERN
regex pattern to filter scheme names
--names_only, -n Only show scheme names
--base-url BASE_URL, -b BASE_URL
Base URL for the API. Suggested values are: http://rest.pubmlst.org/db (default), https://bigsdb.pasteur.fr/api/db
| name | id | description | locus_count | records | last_added | last_updated |
|---|---|---|---|---|---|---|
| achromobacter | 1 | MLST | 7 | 480 | 2020-02-20 | 2020-02-20 |
| abaumannii | 1 | MLST (Oxford) | 7 | 2088 | 2020-02-07 | 2020-02-07 |
| abaumannii | 2 | MLST (Pasteur) | 7 | 1438 | 2020-02-18 | 2020-02-18 |
| aeromonas | 1 | MLST | 6 | 656 | 2020-01-07 | 2020-01-08 |
usage: pubmlst_download [-h] --scheme_name SCHEME_NAME [--scheme_id SCHEME_ID] [--outdir OUTDIR] [--base-url BASE_URL]
optional arguments:
-h, --help show this help message and exit
--scheme_name SCHEME_NAME, -s SCHEME_NAME
scheme name
--scheme_id SCHEME_ID, -i SCHEME_ID
scheme id
--outdir OUTDIR, -o OUTDIR
output directory
--base-url BASE_URL, -b BASE_URL
Base URL for the API. Suggested values are: http://rest.pubmlst.org/db (default), https://bigsdb.pasteur.fr/api/db