Mercurial > repos > nathandunn > biolinkmonarchinitiative

comparison bioentityset-overrepresentation.xml @ 5:6eaaeedf2f37 draft default tip

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planemo upload commit 469f80a2162a7284b6299615caf6aee64bb34167
author nathandunn
date Mon, 04 Dec 2017 21:50:52 -0500
parents 49b46f044d48
children
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4:49b46f044d48 5:6eaaeedf2f37
1 <tool id="monarch-bioentityset-overrepresentation" name="Bioentity Set Get Over Representation" version="0.1.0"> 1 <tool id="monarch-bioentityset-overrepresentation" name="Bioentity Set Get Over Representation" version="0.1.0">
2 <macros> 2 <macros>
3 <import>macros.xml</import> 3 <import>macros.xml</import>
4 </macros> 4 </macros>
5 <requirements>
6 <requirement type="package" version="1.5">jq</requirement>
7 </requirements>
5 <expand macro="frontmatter" /> 8 <expand macro="frontmatter" />
6 <command><![CDATA[ 9 <command><![CDATA[
7 #* 10 #*
8 curl --silent -X GET --header 'Accept: application/json' 'https://api-dev.monarchinitiative.org/api/bioentityset/overrepresentation/?object_category=phenotype&subject=NCBIGene%3A6295&subject=NCBIGene%3A1258&subject=NCBIGene%3A3614&subject=NCBIGene%3A26121&subject=NCBIGene%3A7275&subject=NCBIGene%3A55857&subject=NCBIGene%3A79797&subject=NCBIGene%3A10594&subject=NCBIGene%3A64218&subject=NCBIGene%3A7401&ontology=hp&subject_category=gene&taxon=NCBITaxon%3A9606&object_category=phenotype&max_p_value=0.05' > $output 11 curl --silent -X GET --header 'Accept: application/json' 'https://api-dev.monarchinitiative.org/api/bioentityset/overrepresentation/?object_category=phenotype&subject=NCBIGene%3A6295&subject=NCBIGene%3A1258&subject=NCBIGene%3A3614&subject=NCBIGene%3A26121&subject=NCBIGene%3A7275&subject=NCBIGene%3A55857&subject=NCBIGene%3A79797&subject=NCBIGene%3A10594&subject=NCBIGene%3A64218&subject=NCBIGene%3A7401&ontology=hp&subject_category=gene&taxon=NCBITaxon%3A9606&object_category=phenotype&max_p_value=0.05' > $output
9 *# 12 *#
45 <outputs> 48 <outputs>
46 <data name="output_json" format="json"/> 49 <data name="output_json" format="json"/>
47 <data 50 <data
48 name="output_tsv" 51 name="output_tsv"
49 format="tsv" 52 format="tsv"
50 header_row="1"
51 > 53 >
52 </data> 54 </data>
53 </outputs> 55 </outputs>
54 <tests> 56 <tests>
55 <!-- 57 <!--