Mercurial > repos > jorrit > obotools

view fetch_ontology.xml @ 0:4f8ea94020b1

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author jorrit
date Fri, 08 Feb 2013 20:12:14 -0500
parents
children ebf2b433a239
line wrap: on
line source

<tool id="fetch-remote-ontology" name="fetch remote ontology" version="0.0.13">
  <description>from OBO repository</description>
  <requirements>
    <requirement type="package" version="1.0.11">obo-scripts</requirement>
  </requirements>
  <command>obo-fetch-remote-ontology.pl $ont > $output</command>
  <inputs>
    <param name="ont" type="text" size="50" value="" label="Ontology ID Space" />
  </inputs>
  <outputs>
    <data format="obo" name="output" />
  </outputs>
  <tests>
    <test>
     <param name="ont" value="ECO" />
     <output name="output" file="output.eco.obo.contains" compare="contains"/>
    </test>
  </tests>


  <help>
.. class:: infomark

Fetch entire ontology in OBO format

**Example**

Here are some common ID spaces::

  GO    gene ontology
  CL    cell ontology

**More information**

http://github.com/cmungall/obo-scripts

  </help>

</tool>