Mercurial > repos > devteam > data_manager_fetch_ncbi_taxonomy
diff data_manager/ncbi_taxonomy_fetcher.xml @ 1:926847693e4d draft
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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--- a/data_manager/ncbi_taxonomy_fetcher.xml Thu Oct 08 12:14:42 2015 -0400 +++ b/data_manager/ncbi_taxonomy_fetcher.xml Tue Apr 04 18:08:21 2017 -0400 @@ -1,25 +1,22 @@ <?xml version="1.0"?> <tool id="ncbi_taxonomy_fetcher" name="NCBI" tool_type="manage_data" version="1.0.0"> <description>taxonomy downloader</description> - <stdio> - <exit_code description="Error" level="fatal" range="1:" /> - </stdio> - <command interpreter="python"> + <command detect_errors="exit_code"> <![CDATA[ - data_manager.py --out "${out_file}" + python '$__tool_directory__/data_manager.py' --out '${out_file}' #if $taxonomy_url: - --url "${taxonomy_url}" + --url '${taxonomy_url}' #end if #if $database_name: - --name "${database_name}" + --name '${database_name}' #end if ]]> </command> <inputs> - <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" /> - <param label="Enter URL for taxonomy files" name="taxonomy_url" type="text" /> + <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" label="Enter URL for taxonomy files" /> </inputs> <outputs> - <data format="data_manager_json" name="out_file" /> + <data name="out_file" format="data_manager_json" /> </outputs> </tool>