An RDFBones ontology extension modelling the acquisition routine for pathological data specified in "Standards For Data Collection From Human Skeletal Remains" (1994).
We are currently only implementing elements from the Standards that are needed for an RDFBones ontology extension which we are developing for the Phaleron Bioarchaeological Project. Full implementation is planned for later in 2022.
We are using the ROBOT tool for developing the first version of the ontology extension. The relevant files are in the robot branch of this repository.
Specifications of ontology elements are in a series of template files in the tab-separated value format (.tsv). From these, the web ontology language (.owl) file is compiled using the script Script_StandardsPatho-Robot.sh. To execute, navigate to the directory containing the file and run the scipt as
./Script_StandardsPatho-Robot.sh -b -c -u
The output will appear in a newly created directory 'results' and consist of the single file 'standards-patho.owl'.
The scipt generates a series of intermediate files during the compilation process. To obtain these in the 'results' folder, drop the '-c' ('clean-up') option when executing the script.
Compilation relies on version 0.2 of the RDFBones core ontology which is included in a submodule (./dependencies/RDFBones/) within this repository. The script automatically updates the submodule as long as the '-u' (update) option is set.
The '-b' (build) option causes the script to compile the output file. Use the script without this option to update the submodule or clean up a previously compiled output.