diff disease-associations.xml @ 0:4f6fba8332ec draft

planemo upload commit 570b5e3caa1a2bd2d9937fb6acc3ea991bfeaa10-dirty

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/disease-associations.xml	Wed Jun 21 18:42:56 2017 -0400
@@ -0,0 +1,45 @@
+<tool id="monarch-disease-associations" name="Disease Associations" version="0.1.0">
+    <requirements/>
+    <stdio>
+        <exit_code range="1:" />
+    </stdio>
+	<command><![CDATA[
+curl -X GET --header 'Accept: application/json' 'https://api.monarchinitiative.org/api/bioentity/disease/$input/$association/?rows=$rows&fetch_objects=true' > $output
+	]]></command>
+	<inputs>
+	    <param  name="input" type="text" format="txt" multiple="false" label="Disease  (e.g. OMIM:605543, DOID:678)" />
+		<param  name="association" type="select" multiple="false" display="radio" label="Type">
+			<option value="genes">Genes</option>
+			<option value="models">Models</option>
+			<option value="phenotypes">Phenotypes</option>
+		</param>
+		<param name="rows" type="text" format="txt" multiple="false" value="1000" label="Num Rows"/>
+    </inputs>
+    <outputs>
+	        <data name="output" format="json" />
+    </outputs>
+	 <tests>
+		 <test>
+			 <param name="input" value="OMIM:605543"/>
+			 <param name="association" value="genes"/>
+			 <output name="output" file="genes-for-disease.json"/>
+		 </test>
+		 <test>
+			 <param name="input" value="OMIM:605543"/>
+			 <param name="association" value="models"/>
+			 <output name="output" file="models-for-disease.json"/>
+		 </test>
+		 <test>
+			 <param name="input" value="OMIM:605543"/>
+			 <param name="association" value="phenotypes"/>
+			 <output name="output" file="phenotypes-for-disease.json"/>
+		 </test>
+	 </tests>
+    <help><![CDATA[
+        Pulls data from Monarch Initiative BioLink API web services as JSON.
+		https://api.monarchinitiative.org/api/
+    ]]></help>
+	<citations>
+		<citation type="doi">doi:10.5281/zenodo.56412</citation>
+    </citations>
+</tool>