Mercurial > repos > nathandunn > biolinkmonarchinitiative
comparison search-operations.xml @ 2:88e1bd76b069 draft
planemo upload commit 91b079b5648caa7a8795ec0957a4b11e104d986e
| author | nathandunn |
|---|---|
| date | Thu, 22 Jun 2017 15:28:43 -0400 |
| parents | 4f6fba8332ec |
| children |
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| 1:8fdad43e4250 | 2:88e1bd76b069 |
|---|---|
| 1 <tool id="monarch-search-operations" name="Search Operations" version="0.1.0"> | 1 <tool id="monarch-search-operations" name="Search Operations" version="0.1.0"> |
| 2 <requirements/> | 2 <macros> |
| 3 <stdio> | 3 <import>macros.xml</import> |
| 4 <exit_code range="1:" /> | 4 </macros> |
| 5 </stdio> | 5 <expand macro="frontmatter" /> |
| 6 <command><![CDATA[ | 6 <command><![CDATA[ |
| 7 curl -X GET --header 'Accept: application/json' 'https://api.monarchinitiative.org/api/search/entity/$input?rows=$rows&fetch_objects=true' > $output | 7 curl --silent -X GET --header 'Accept: application/json' 'https://api.monarchinitiative.org/api/search/entity/$input?rows=$rows&fetch_objects=true' > $output |
| 8 ]]></command> | 8 ]]></command> |
| 9 <inputs> | 9 <inputs> |
| 10 <param name="input" type="text" format="txt" multiple="false" label="Search Term (e.g. shh, parkinson, femur)" /> | 10 <param name="input" type="text" format="txt" multiple="false" label="Search Term (e.g. shh, parkinson, femur)" /> |
| 11 <param name="rows" type="text" format="txt" multiple="false" value="1000" label="Num Rows"/> | 11 <param name="rows" type="text" format="txt" multiple="false" value="1000" label="Num Rows"/> |
| 12 </inputs> | 12 </inputs> |
| 13 <outputs> | 13 <expand macro="outputs" /> |
| 14 <data name="output" format="json" /> | |
| 15 </outputs> | |
| 16 <tests> | 14 <tests> |
| 17 <test> | 15 <test> |
| 18 <param name="input" value="ssh"/> | 16 <param name="input" value="ssh"/> |
| 19 <output name="output" file="ssh-search-term.json"/> | 17 <output name="output" file="ssh-search-term.json"/> |
| 20 </test> | 18 </test> |
| 25 <test> | 23 <test> |
| 26 <param name="input" value="femur"/> | 24 <param name="input" value="femur"/> |
| 27 <output name="output" file="femur-search-term.json"/> | 25 <output name="output" file="femur-search-term.json"/> |
| 28 </test> | 26 </test> |
| 29 </tests> | 27 </tests> |
| 30 <help><![CDATA[ | 28 <expand macro="citations" /> |
| 31 Pulls data from Monarch Initiative BioLink API web services as JSON. | |
| 32 https://api.monarchinitiative.org/api/ | |
| 33 ]]></help> | |
| 34 <citations> | |
| 35 <citation type="doi">doi:10.5281/zenodo.56412</citation> | |
| 36 </citations> | |
| 37 </tool> | 29 </tool> |
| 38 | 30 |