============
databases.py
============

.. code-block:: bash

	usage: databases.py

	Main script to configure Autometa database dependencies.

	optional arguments:
	  -h, --help            show this help message and exit
	  --config CONFIG       </path/to/input/database.config> (default:
	                        DEFAULT_FPATH)
	  --dryrun              Log configuration actions but do not perform them.
	                        (default: False)
	  --update-all          Update all out-of-date databases. (NOTE: Does not
	                        update GTDB) (default: False)
	  --update-markers      Update out-of-date markers databases. (default: False)
	  --update-ncbi         Update out-of-date ncbi databases. (default: False)
	  --update-gtdb         Download and format the user-configured GTDB release
	                        databases (default: False)
	  --check-dependencies  Check database dependencies are satisfied. (default:
	                        False)
	  --no-checksum         Do not perform remote checksum comparisons to validate
	                        databases are up-to-date. (default: False)
	  --nproc NPROC         num. cpus to use for DB formatting. (default: 2)
	  --out OUT             </path/to/output/database.config> (default: None)

	By default, with no arguments, will download/format databases into default
	databases directory.