Mercurial > repos > estrain > data_manager_amrfinderplus
diff data_manager_amrfinderplus/data_manager/data_manager_amrfinderplus.xml @ 0:36ba79e745fd draft
Uploaded
author | estrain |
---|---|
date | Mon, 23 May 2022 02:20:25 +0000 |
parents | |
children | 650186ccc063 |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/data_manager_amrfinderplus/data_manager/data_manager_amrfinderplus.xml Mon May 23 02:20:25 2022 +0000 @@ -0,0 +1,24 @@ +<tool id="data_manager_amrfinderplus" name="AMRFinderPlus Data Manger" tool_type="manage_data" version="0.0.3" profile="20.01"> + <requirements> + <requirement type="package">blast</requirement> + <requirement type="package">hmmer</requirement> + </requirements> + <command detect_errors="exit_code"><![CDATA[ + python $__tool_directory__/data_manager_amrfinderplus.py --name $amrdbname --out ${output_file}; + ]]></command> + <inputs> + <param name="amrdbname" type="text" label="Name of AMRFinderPlus database"/> + </inputs> + <outputs> + <data name="output_file" format="data_manager_json"/> + </outputs> + <tests> + <test> + </test> + </tests> + <help> + </help> + <citations> + Refer to https://ftp.ncbi.nlm.nih.gov/pathogen/Antimicrobial_resistance/AMRFinderPlus/database/latest/ for latest database version number. + </citations> +</tool>