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annotate substance-associations.xml @ 0:028a3ffc17b4 draft

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author nathandunn
date Fri, 23 Jun 2017 15:04:12 -0400
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028a3ffc17b4 planemo upload commit b095175f34e78ceded24a6e1da99b328f50db86d
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1 <tool id="planteome-substance-associations" name="Substance Associations" version="0.1.0">
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2 <macros>
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3 <import>macros.xml</import>
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4 </macros>
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5 <expand macro="frontmatter" />
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6 <command><![CDATA[
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7 curl --silent -X GET --header 'Accept: application/json' 'http://biolink.planteome.org/apiapi/bioentity/substance/$input/$association/?rows=$rows&fetch_objects=true' > $output
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8 ]]></command>
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9 <inputs>
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10 <param name="input" type="text" format="txt" multiple="false" label="Substance (e.g. CHEBI:40036)" />
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11 <param name="association" type="select" multiple="false" display="radio" label="Type">
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12 <option value="participant_in">Participant In</option>
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13 <option value="roles">Roles</option>
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14 <!--<option value="treats">Treats</option>-->
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15 </param>
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16 <param name="rows" type="text" format="txt" multiple="false" value="1000" label="Num Rows"/>
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17 </inputs>
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18 <expand macro="outputs" />
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19 <tests>
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20 <test>
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21 <param name="input" value="CHEBI:40036"/>
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22 <param name="association" value="participant_in"/>
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23 <output name="output" file="participatant_in-for-substance.json"/>
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24 </test>
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25 <test>
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26 <param name="input" value="CHEBI:40036"/>
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27 <param name="association" value="roles"/>
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28 <output name="output" file="roles-for-substance.json"/>
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29 </test>
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30 <!--seems to break-->
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31 <!--<test>-->
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32 <!--<param name="input" value="CHEBI:40036"/>-->
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33 <!--<param name="association" value="treats"/>-->
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34 <!--<output name="output" file="treats-for-substance.json"/>-->
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35 <!--</test>-->
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36 </tests>
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37 <expand macro="citations" />
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38 </tool>
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39