Mercurial > repos > card > rgi
comparison data_managers/data_manager_rgi_build_db/data_manager/rgi_database_builder.xml @ 0:715bc9aeef69 draft
planemo upload for repository https://github.com/arpcard/rgi commit 7a78289be23c5a14ae39f454610fa8eca3f05188
| author | card |
|---|---|
| date | Wed, 27 Feb 2019 09:08:21 -0500 |
| parents | |
| children | f96cbb663aa9 |
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| -1:000000000000 | 0:715bc9aeef69 |
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| 1 <?xml version="1.0"?> | |
| 2 <tool id="rgi_database_builder" name="RGI Database Builder" tool_type="manage_data" version="1.0.0"> | |
| 3 <description>Download and build the CARD database for RGI</description> | |
| 4 <requirements> | |
| 5 <requirement type="package" version="4.2.2">rgi</requirement> | |
| 6 </requirements> | |
| 7 <stdio> | |
| 8 <exit_code description="Error" level="fatal" range="1:" /> | |
| 9 </stdio> | |
| 10 <command interpreter="python3"> | |
| 11 <![CDATA[ | |
| 12 rgi_database_builder.py --out "${out_file}" | |
| 13 #if $name: | |
| 14 --name "${name}" | |
| 15 #end if | |
| 16 #if $url: | |
| 17 --url "${url}" | |
| 18 #end if | |
| 19 ]]> | |
| 20 </command> | |
| 21 <inputs> | |
| 22 <param name="name" type="text" value="" label="Database name" help="Name for this database, or leave blank for today's date" optional="True"/> | |
| 23 <param name="url" type="text" value="https://card.mcmaster.ca/latest/data" label="Url" help="Url for the CARD data e.g https://card.mcmaster.ca/lastest/data. Visit https://card.mcmaster.ca/download to see previous CARD releases." optional="True"/> | |
| 24 </inputs> | |
| 25 <outputs> | |
| 26 <data format="data_manager_json" name="out_file" label="${tool.name} (JSON)"/> | |
| 27 </outputs> | |
| 28 </tool> |