Mercurial > repos > nathandunn > biolinkplanteome
comparison associations.xml @ 0:028a3ffc17b4 draft
planemo upload commit b095175f34e78ceded24a6e1da99b328f50db86d
author | nathandunn |
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date | Fri, 23 Jun 2017 15:04:12 -0400 |
parents | |
children | 66ece4fd024f |
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1 <tool id="planteome-associations" name="Associations" version="0.1.0"> | |
2 <macros> | |
3 <import>macros.xml</import> | |
4 </macros> | |
5 <expand macro="frontmatter" /> | |
6 <command><![CDATA[ | |
7 #if $type == 'find' | |
8 curl --silent -X GET --header 'Accept: application/json' 'http://biolink.planteome.org/apiapi/association/$type/?rows=$rows&fetch_objects=true&subject=$subject' > $output | |
9 #else if $type == 'from' | |
10 curl --silent -X GET --header 'Accept: application/json' 'http://biolink.planteome.org/apiapi/association/$type/$subject?rows=$rows&fetch_objects=true' > $output | |
11 #else if $type == 'to' | |
12 curl --silent -X GET --header 'Accept: application/json' 'http://biolink.planteome.org/apiapi/association/$type/$object?rows=$rows&fetch_objects=true' > $output | |
13 #else if $type == 'between' | |
14 curl --silent -X GET --header 'Accept: application/json' 'http://biolink.planteome.org/apiapi/association/$type/$subject/$object?rows=$rows&fetch_objects=true' > $output | |
15 #end if | |
16 ]]></command> | |
17 <inputs> | |
18 <param name="subject" type="text" format="txt" multiple="false" label="Subject"/> | |
19 <param name="object" type="text" format="txt" multiple="false" label="Object"/> | |
20 <param name="type" type="select" multiple="false" display="radio" label="Type"> | |
21 <option value="find">Find (subject)</option> | |
22 <option value="from">From (subject)</option> | |
23 <option value="to">To (object)</option> | |
24 <option value="between">Between (subject -> object)</option> | |
25 </param> | |
26 <param name="rows" type="text" format="txt" multiple="false" value="1000" label="Num Rows"/> | |
27 </inputs> | |
28 <expand macro="outputs" /> | |
29 <tests> | |
30 <test> | |
31 <param name="subject" value="NCBIGene:84570"/> | |
32 <param name="type" value="find"/> | |
33 <output name="output" file="find-associations-for-subject.json"/> | |
34 </test> | |
35 <test> | |
36 <param name="subject" value="NCBIGene:84570"/> | |
37 <param name="type" value="from"/> | |
38 <output name="output" file="from-associations-for-subject.json"/> | |
39 </test> | |
40 <test> | |
41 <param name="object" value="MP:0013765"/> | |
42 <param name="type" value="to"/> | |
43 <output name="output" file="to-associations-for-object.json"/> | |
44 </test> | |
45 <test> | |
46 <param name="subject" value="MGI:1342287"/> | |
47 <param name="object" value="MP:0013765"/> | |
48 <param name="type" value="between"/> | |
49 <output name="output" file="between-associations.json"/> | |
50 </test> | |
51 </tests> | |
52 <expand macro="citations" /> | |
53 </tool> | |
54 |