Command Line Interface

bioontologies automatically installs the command bioontologies. See bioontologies --help for usage details.

bioontologies

CLI for bioontologies.

bioontologies [OPTIONS] COMMAND [ARGS]...

Options

--version

Show the version and exit.

index

Generate a node index file.

bioontologies index [OPTIONS] PREFIX

Options

--directory <directory>

--graph-id <graph_id>

The IRI of the graph to parse. Set this if it can’t be guessed

--save-obograph

Save intermediate OBO Graph JSON file if conversion from OWL is required

Arguments

PREFIX

Required argument