Ontology extensions: Difference between revisions

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(Created page with " Ontology extensions or bridge modules are sub-ontologies maintained by the GOC that are not merged into the main GO file. This replaces the previous cross-product files. == Br...")
 
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Ontology extensions or bridge modules are sub-ontologies maintained by the GOC that are not merged into the main GO file.
Ontology extensions or bridge modules are sub-ontologies maintained by the GOC that are not merged into the main GO file.


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== Browsing ==
== Browsing ==


The extension ontologies are in OWL and are best viewed and edited in Protege.
The extension ontologies are in OWL and are best viewed and edited in Protege 4.


The URLs for the GO extensions all start with http://purl.obolibrary.org/obo/go/extensions/
The URLs for the GO extensions all start with http://purl.obolibrary.org/obo/go/extensions/
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* http://purl.obolibrary.org/obo/go/extensions/x-cell-importer.owl
* http://purl.obolibrary.org/obo/go/extensions/x-cell-importer.owl


== SVN Access (edtors) ==
== Editors Guide ==
 
=== SVN Access ===


The primary location for the GO extensions are in GO SVN (not supported in the legacy CVS structure) in the [http://viewvc.geneontology.org/viewvc/GO-SVN/trunk/ontology/extensions/ ontology/extensions/] directory
The primary location for the GO extensions are in GO SVN (not supported in the legacy CVS structure) in the [http://viewvc.geneontology.org/viewvc/GO-SVN/trunk/ontology/extensions/ ontology/extensions/] directory
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* [[Ontology_Release_Files_Proposal]]
* [[Ontology_Release_Files_Proposal]]


== How to view and edit extension ontologies ==
=== Editing logical definitions in extension ontologies ===
 


# Check out the ontology/ tree from SVN
# Load the importer ontology into Protege 4
# In the Protege menu select View/Show all loaded ontologies
# In the ontology selector bar at the top, select the bridge ontology (not the importer). E.g. x-cell.owl
# Add, delete and modify logical definitions in extension
# Save back to extension file (e.g. x-cell.owl)
# svn commit




=== Tip ===
=== Tip for faster access ===

Revision as of 21:02, 21 December 2011

Ontology extensions or bridge modules are sub-ontologies maintained by the GOC that are not merged into the main GO file.

This replaces the previous cross-product files.

Browsing

The extension ontologies are in OWL and are best viewed and edited in Protege 4.

The URLs for the GO extensions all start with http://purl.obolibrary.org/obo/go/extensions/

You should load one of the "importer" files into Protege.

E.g.

Editors Guide

SVN Access

The primary location for the GO extensions are in GO SVN (not supported in the legacy CVS structure) in the ontology/extensions/ directory

For more info see:

Editing logical definitions in extension ontologies

  1. Check out the ontology/ tree from SVN
  2. Load the importer ontology into Protege 4
  3. In the Protege menu select View/Show all loaded ontologies
  4. In the ontology selector bar at the top, select the bridge ontology (not the importer). E.g. x-cell.owl
  5. Add, delete and modify logical definitions in extension
  6. Save back to extension file (e.g. x-cell.owl)
  7. svn commit


Tip for faster access