p3-all-drugs

Return All Drugs in MAAGE

p3-all-drugs [options]

This script returns the IDs of all the antibiotic drugs in the MAAGE database. It supports standard filtering parameters and the specification of additional columns if desired.

Parameters

There are no positional parameters.

The command-line options are those given in Data Options plus the following.

• fields

List the names of the available fields.

Example

This command is used in the tutorial p3_CLI.html;

p3-all-drugs | p3-get-drug-genomes --attr genome_id --attr genome_name --resistant

It lists all drugs in the database and feeds the id’s to the p3-get-drug-genomes script to get resistance data relating to specific drugs from a list.