Mercurial > repos > erick-antezana > onto-toolkit

diff onto-toolkit/tools/ontology/get_relationship_types.xml @ 0:4484575e4186
Migrated tool version 0.1 from old tool shed archive to new tool shed repository
author: erick-antezana
date: Tue, 07 Jun 2011 17:51:45 -0400
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/onto-toolkit/tools/ontology/get_relationship_types.xml	Tue Jun 07 17:51:45 2011 -0400
@@ -0,0 +1,45 @@
+<tool id="get_relationship_types" name="Get all the relationship types in an ontology" version="1.22">
+  <description>Collects the relationship types in the given OBO ontology</description>
+  <command interpreter="perl">/usr/bin/get_relationship_types.pl $input_ontology > $output</command>
+  <inputs>
+    <param format="text" name="input_ontology" type="data" label="Source file"/>
+  </inputs>
+  <outputs>
+    <data format="tabular" name="output" />
+  </outputs>
+
+  <tests>
+    <test>
+      <param name="input" value="pre_cco_core.obo"/>
+      <output name="out_file" file="relationship_types.txt"/>
+    </test>
+  </tests>
+
+  <help>
+
+.. class:: infomark
+
+
+Collects all the names of the relationship_types in a given ontology.
+
+**Example**
+
+If you ask for the relationships of the Gene Ontology, you will get::
+
+  is_a
+  part_of
+  regulates
+  has_part
+  negatively_regulates
+  positively_regulates
+
+**More information**
+
+  ONTO-PERL: An API supporting the development and analysis of bio-ontologies
+  E. Antezana; M. Egana; B. De Baets; M. Kuiper; V. Mironov
+  Bioinformatics 2008; doi: 10.1093/bioinformatics/btn042
+
+  </help>
+
+</tool>
+