OntoME importer

This repository contains the scripts which transform an RDF ontology file into the format needed for its import into the the Ontology Management Environment, as well as small useful scripts to perform punctual transformations, when having another format may help the user understand the source better. Most scripts use the Python rdflib library to import the ontology directly as a graph and write the output file directly from that graph.

The scripts

The scripts included here may be executed via Jupyter Notebook, if all the necessary Python libraries are installed (always see first code cell).

• graph_to_ontome.ipynb is the main script here, transforming a serialization into the OntoME import format. Any input format supported by RDFlib may be imported here.
• import_crm.ipynb is the state of the script before RDFlib was integrated and necessitates an RDFS-XML input file.
• get_original_uris.ipynb imports the unique information of all classes and properties in OntoME, on one side, and the ontologies of the namespaces external to OntoME, on the other side, in order to match the original URIs of each object and import them in OntoME.
• xml_to_dict.ipynb uses the Python xmltodict library, to output a Json file from any XML file.
• ttl-to-rdfs.ipynb uses RDFlib to transform a Turtle format file into an XML-RDFs file.

The folders

• data contains output files produced for punctual needs, possibly in a terminal without scripts. They are here merely for future reference.
• input contains only ontology description files which were given to, or are to be given to the main graph_to_ontome script.
• output contains the final significant results of the main graph_to_ontome script. Test output files made before the final state are not to be included in this public repository.
• references contains files useful to the main graph_to_ontome script, such as the XML schema for the output files and the dated Json representation of the namespaces already included in OntoME, along with their identifiers.

Transformations

Here are the transformations already performed, which are kept in the output folder:

• CIDOC-CRM v° 5.0.4
• CIDOC-CRM v° 7.1.1
• DoReMus v° 0.2