Mercurial > repos > nathandunn > biolinkplanteome
comparison bulk-operations.xml @ 1:66ece4fd024f draft default tip
planemo upload commit 20eeb677e99874173440a365f2db04e315e7ebed
| author | nathandunn |
|---|---|
| date | Wed, 28 Jun 2017 10:27:08 -0400 |
| parents | 028a3ffc17b4 |
| children |
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| 0:028a3ffc17b4 | 1:66ece4fd024f |
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| 2 <macros> | 2 <macros> |
| 3 <import>macros.xml</import> | 3 <import>macros.xml</import> |
| 4 </macros> | 4 </macros> |
| 5 <expand macro="frontmatter" /> | 5 <expand macro="frontmatter" /> |
| 6 <command><![CDATA[ | 6 <command><![CDATA[ |
| 7 curl --silent -X GET --header 'Accept: application/json' 'http://biolink.planteome.org/apiapi/mart/$association/$object_category/$taxon?rows=$rows&fetch_objects=true' > $output | 7 curl --silent -X GET --header 'Accept: application/json' 'http://biolink.planteome.org/api/mart/$association/$object_category/$taxon?rows=$rows&fetch_objects=true' > $output |
| 8 ]]></command> | 8 ]]></command> |
| 9 <inputs> | 9 <inputs> |
| 10 <param name="taxon" type="text" format="txt" multiple="false" label="Taxon (e.g. NCBITaxon:9606)"/> | 10 <param name="taxon" type="text" format="txt" multiple="false" label="Taxon (e.g. NCBITaxon:4530)"/> |
| 11 <param name="object_category" type="text" format="txt" multiple="false" label="Object Category (e.g. phenotype, disease)"/> | 11 <param name="object_category" type="text" format="txt" multiple="false" label="Object Category (e.g. phenotype)"/> |
| 12 <param name="association" type="select" multiple="false" display="radio" label="Type"> | 12 <param name="association" type="select" multiple="false" display="radio" label="Type"> |
| 13 <option value="gene">Gene</option> | 13 <option value="gene">Gene</option> |
| 14 <option value="disease">Disease</option> | 14 <!--<option value="disease">Disease</option>--> |
| 15 <option value="case">Case</option> | 15 <!--<option value="case">Case</option>--> |
| 16 </param> | 16 </param> |
| 17 <param name="rows" type="text" format="txt" multiple="false" value="1000" label="Num Rows"/> | 17 <param name="rows" type="text" format="txt" multiple="false" value="10" label="Num Rows"/> |
| 18 </inputs> | 18 </inputs> |
| 19 <expand macro="outputs" /> | 19 <expand macro="outputs" /> |
| 20 <tests> | 20 <tests> |
| 21 <!--NOTE: these take way too long to run because fo the large amount of data involved--> | 21 <!--NOTE: these take way too long to run because fo the large amount of data involved--> |
| 22 <!--<test>--> | 22 <!--<test>--> |