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comparison data_manager/ncbi_taxonomy_fetcher.xml @ 1:926847693e4d draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_fetch_ncbi_taxonomy/ commit 8652f36a3a3838dca989426961561e81432acf4f
author iuc
date Tue, 04 Apr 2017 18:08:21 -0400
parents fafcd2f5db36
children 4af4e175db0d
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0:fafcd2f5db36 1:926847693e4d
1 <?xml version="1.0"?> 1 <?xml version="1.0"?>
2 <tool id="ncbi_taxonomy_fetcher" name="NCBI" tool_type="manage_data" version="1.0.0"> 2 <tool id="ncbi_taxonomy_fetcher" name="NCBI" tool_type="manage_data" version="1.0.0">
3 <description>taxonomy downloader</description> 3 <description>taxonomy downloader</description>
4 <stdio> 4 <command detect_errors="exit_code">
5 <exit_code description="Error" level="fatal" range="1:" />
6 </stdio>
7 <command interpreter="python">
8 <![CDATA[ 5 <![CDATA[
9 data_manager.py --out "${out_file}" 6 python '$__tool_directory__/data_manager.py' --out '${out_file}'
10 #if $taxonomy_url: 7 #if $taxonomy_url:
11 --url "${taxonomy_url}" 8 --url '${taxonomy_url}'
12 #end if 9 #end if
13 #if $database_name: 10 #if $database_name:
14 --name "${database_name}" 11 --name '${database_name}'
15 #end if 12 #end if
16 ]]> 13 ]]>
17 </command> 14 </command>
18 <inputs> 15 <inputs>
19 <param help="Enter a unique identifier, or leave blank for today's date" label="Name for this database" name="database_name" type="text" optional="True" /> 16 <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" />
20 <param label="Enter URL for taxonomy files" name="taxonomy_url" type="text" /> 17 <param name="taxonomy_url" type="text" label="Enter URL for taxonomy files" />
21 </inputs> 18 </inputs>
22 <outputs> 19 <outputs>
23 <data format="data_manager_json" name="out_file" /> 20 <data name="out_file" format="data_manager_json" />
24 </outputs> 21 </outputs>
25 </tool> 22 </tool>