# HG changeset patch
# User Mikel Egaña Aranguren <mikel-egana-aranguren@toolshed.g2.bx.psu.edu>
# Date 1326905945 -3600
# Node ID 4cd75b0d77af0c227e7ffacc7dc5f56112ac9e85
# Parent  0078fe4c89e3746a05ebda3965ff70fe45ebcf57
get ontology view tool added

diff -r 0078fe4c89e3 -r 4cd75b0d77af NCBO_services/README
--- a/NCBO_services/README	Wed Jan 18 16:04:52 2012 +0100
+++ b/NCBO_services/README	Wed Jan 18 17:59:05 2012 +0100
@@ -23,6 +23,7 @@
   <section name="NCBO services" id="NCBO_services">
     <tool file="NCBO_services/get_ontology.xml"/>
     <tool file="NCBO_services/extract.xml"/>
+    <tool file="NCBO_services/get_ontology_view.xml"/>
     <tool file="NCBO_services/ncbo_annotator.xml"/>
     <tool file="NCBO_services/ncbo_annotator.xml"/>
     <tool file="NCBO_services/ncbo_recommender.xml"/>
diff -r 0078fe4c89e3 -r 4cd75b0d77af NCBO_services/get_ontology_view.jar
Binary file NCBO_services/get_ontology_view.jar has changed
diff -r 0078fe4c89e3 -r 4cd75b0d77af NCBO_services/get_ontology_view.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/NCBO_services/get_ontology_view.xml	Wed Jan 18 17:59:05 2012 +0100
@@ -0,0 +1,40 @@
+<tool id="get_ontology_view" name="Get a concrete view of an ontology" version="1.0.1">
+	<description>Retrieves a view of an ontology using the view id</description>
+	<command>java -jar ${__tool_data_path__}/shared/jars/get_ontology_view.jar $api_key $ontologyviewid > $output </command>  
+
+	<inputs>
+		<param name="api_key" type="text" size="100" label="BioPortal API key" />
+		<param name="ontologyviewid" type="text" size="100" label="Ontology view ID" />
+	</inputs>
+	<outputs>
+		<data format="text" name="output" />
+	</outputs>
+	<tests>
+		<test>
+			<param name="api_key"/>
+		</test>
+	</tests>
+	<help>
+
+**What it does**
+
+It retrieves a view from an ontology contained in BioPortal.
+
+**Parameters**
+
+* Bioportal API key: to obtain an API key, open an account in http://bioportal.bioontology.org.
+* Ontology view ID: it can be obtained from BioPortal, in the Ontology page, on the views section, by looking at the view URL. For example, it is 41014 for the generic Gene Ontology slim.
+
+**Contact**
+
+Please send any request or comment to mikel.egana.aranguren@gmail.com.
+    
+**More information**
+
+http://bioportal.bioontology.org
+  
+http://www.bioontology.org/wiki/index.php/BioPortal_REST_services
+
+	</help>
+
+</tool>