VIVO Documentation
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Modifying or removing the myOntology.owl file in the filegraph directory and restarting Tomcat will automatically update the ontology VIVO.
Namespace Prefixes
Additional ontologies, whether directly imported via 'Add/Remove RDF data' or implemented as filegraphs, are listed in the ontology list ('Site Admin > Ontology list'). While the ontologies name and namespace are automatically added to the list, the prefix is not. Instead, the note '(not yet specified)' appears. This behavior occurs even if the prefix is correctly specified in the RDF file.
For ontologies that are added to an existing VIVO installation, the prefix needs to be entered manually into the ontology list. If the additional ontology is to be provided with the software before installation, however, the prefix to be added automatically during the build process can be specified beforehand.
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The following procedure is only relevant if you want to add an ontology before the software is installed on a server. |
VIVO keeps an internal record of prefixes that is read from the /rdf/tbox/firsttime/ directory. The prefixes of the ontologies that are loaded with VIVO are specified in the 'initialTBoxAnnotations.n3' file. You can add an additional prefix by adding the following lines either to this file or to a separate file (which is useful in a three-tier build):
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@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix vitro: <http://vitro.mannlib.cornell.edu/ns/vitro/0.7#> .
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
<http://*URI/of/the/added/ontology*>
rdfs:label "*Name of added ontology*" @en-US;
vitro:ontologyPrefixAnnot "*OntologyPrefix*"^^xsd:string |
Of course, the strings enclosed by asterisks need to be adapted according to your custom ontology. After VIVO is built, you should find the new ontology in the ontology list, with its specified prefix.
(source: VIVO-1118)
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