Mercurial > repos > devteam > data_manager_fetch_ncbi_taxonomy
view data_manager/ncbi_taxonomy_fetcher.xml @ 3:bdd8632fa9fb draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_fetch_ncbi_taxonomy/ commit 1bcd553f81064957d5786302361675c29ed58a8d"
author | iuc |
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date | Mon, 06 Jul 2020 19:32:35 -0400 |
parents | 4af4e175db0d |
children | d6acd5cd497b |
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<?xml version="1.0"?> <tool id="ncbi_taxonomy_fetcher" name="NCBI" tool_type="manage_data" version="1.0.2"> <description>taxonomy downloader</description> <requirements> <requirement type="package" version="3.7">python</requirement> </requirements> <command detect_errors="exit_code"> <![CDATA[ python '$__tool_directory__/data_manager.py' --out '${out_file}' #if $taxonomy_url: --url '${taxonomy_url}' #end if #if $database_name: --name '${database_name}' #end if ]]> </command> <inputs> <param name="database_name" type="text" optional="true" label="Name for this database" help="Enter a unique identifier, or leave blank for today's date" /> <param name="taxonomy_url" type="text" value='ftp://ftp.ncbi.nih.gov/pub/taxonomy/taxdump.tar.gz' label="Enter URL for taxonomy files" /> </inputs> <outputs> <data name="out_file" format="data_manager_json" /> </outputs> <tests> <test> <param name="database_name" value="tax_name"/> <param name="database_id" value="tax_id"/> <output name="out_file" value="taxonomy.json"/> </test> </tests> <help> Download a taxonomy dump from a provided URL. The default URL is the latest dump from NCBI taxonomy. </help> </tool>