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https://github.com/cknoll/yamlpyowl
python based YAML-to-OWL-converter
https://github.com/cknoll/yamlpyowl
ontology owl python semantic-web yaml
Last synced: 3 months ago
JSON representation
python based YAML-to-OWL-converter
- Host: GitHub
- URL: https://github.com/cknoll/yamlpyowl
- Owner: cknoll
- License: other
- Created: 2020-10-19T15:14:17.000Z (over 3 years ago)
- Default Branch: main
- Last Pushed: 2022-05-20T08:34:01.000Z (about 2 years ago)
- Last Synced: 2024-02-25T16:22:05.304Z (4 months ago)
- Topics: ontology, owl, python, semantic-web, yaml
- Language: Python
- Homepage:
- Size: 172 KB
- Stars: 14
- Watchers: 4
- Forks: 3
- Open Issues: 1
-
Metadata Files:
- Readme: README.md
- License: LICENSE
Lists
- awesome-ontology - yamlpyowl - Python based YAML-to-OWL-converter. (Ontology Utilities)
README
[](https://cloud.drone.io/cknoll/yamlpyowl)
[](https://github.com/psf/black)
# General Information
This tool (yamlpyowl) aims to read an ontology (including individuals and SWRL rules) specified via the simple and widespread data-serialization language [YAML](https://en.wikipedia.org/wiki/YAML) and represent it as collection of python-objects via the package [`owlready2`](https://owlready2.readthedocs.io). From there, a reasoner can be used or the ontology can be exported to standard-owl format *rdfxml*.
# Motivation
Almost all existing OWL2-syntax-dialects (RDF-XML, Turtle, Manchester) seem more or less unpractical for **manual authoring**. On the other hand, to encourage contributions, e.g. from students, the requirement to learn a sophisticated tool like [Protégé](http://protege.stanford.edu/) or at least some *exotic* syntax like Manchester seems to be a significant hurdle. See also [this blog post](https://keet.wordpress.com/2020/04/10/a-draft-requirements-catalogue-for-ontology-languages/) from knowledge engineering expert Maria Keet, and especially requirement HU-3: *"Have at least one compact, human-readable syntax defined so that it can be easily typed up in emails."* The tool yamlpyowl aims to explore in that direction. It relies on the widespread human-readable data-serialization language [YAML](https://en.wikipedia.org/wiki/YAML).
The project is part of the authors endeavour to simplify the understanding and the usage of semantic technologies for humans without much experience in this field, e.g. from engineering.
# Examples
## Overview
- [examples/pizza.owl.yml](examples/pizza.owl.yml) (Simple example, see also below)
- [examples/einsteins_zebra_riddle.owl.yml](examples/einsteins_zebra_riddle.owl.yml)
- Understandable OWL-Representation of a famous logical puzzle, posed by A. Einstein. The reasoner solves this puzzle (see unittests).
- [examples/regional-rules.owl.yml](examples/regional-rules.owl.yml)
More examples can be found in the directory.
## Pizza Ontology Preview
The following example is a strongly simplified fragment of the "Pizza-Ontology" which is often used as introduction, e.g. in Protégé tutorials.
```yaml
# shortcut to define multiple classes
- multiple_owl_classes:
- Food:
SubClassOf: "owl:Thing"
- PizzaBase:
SubClassOf: Food
# ---
- ThinAndCrispyBase:
SubClassOf: PizzaBase
# ---
- PizzaTopping:
SubClassOf: Food
- CheezeTopping:
SubClassOf: PizzaTopping
- MozzarellaTopping:
SubClassOf: CheezeTopping
# ...
- owl_object_property:
hasSpiciness:
Domain:
- "owl:Thing"
Range:
- Spiciness
Characteristics:
- Functional
- owl_object_property:
hasIngredient:
# shortcut: use plain string instead of len1-list
Domain: Food
Range: Food
Characteristics:
- Transitive
# ...
# create an individual
- owl_individual:
mypizza1:
types:
- Pizza
# assert some facts
- property_facts:
hasTopping:
Facts:
- mypizza1:
- iTomatoTopping
- iMozzarellaTopping
hasBase:
Facts:
- mypizza1: iThinAndCrispyBase
```
# Features
*yamlpyowl* implements some "magic" convenience features, i.e. extensions to OWL2. To be easily recognizable the corresponding keywords all start with `X_`.
## RelationConcepts to Simplify n-ary Relations
The concept name `X_RelationConcept` has a special meaning. It is used to simplify the creation of n-ary relations. In OWL it is typically required to create a own concept for such relations and an instance (individual) for each concrete relation, see this [W3C Working Group Note](https://www.w3.org/TR/swbp-n-aryRelations/#pattern1).
The parser of *yamlpyowl* simplifies this: For every subclass of `X_RelationConcept` (which must start with `X_`and by convention should end with `_RC`, e.g. `X_DocumentReference_RC`)) the parser automatically creates a role `X_hasDocumentReference_RC`. Its domain can be specified with the attribute `X_associatedWithClasses`. The roles which can be applied to this concept are defined as usual. The application to individuals is done by `relation_concept_facts`.
Short Example:
```yaml
- multiple_owl_classes:
# ...
- X_RelationConcept:
# base class
SubClassOf: "owl:Thing"
- X_CombinedTasteValue_RC:
SubClassOf: X_RelationConcept
X_associatedWithClasses:
- PizzaTopping
- owl_object_property:
hasCombinationPartner:
Domain: X_CombinedTasteValue_RC
Range: Food
- owl_data_property:
hasFunctionValue:
Domain: "owl:Thing"
Range:
- float
Characteristics:
- Functional
# model two ternary relations: Mozzarella tastes 95%-good in
# combination with tomatos but only 50%-good in combination with meat.
- relation_concept_facts:
iMozzarellaTopping:
X_hasCombinedTasteValue_RC:
- hasCombinationPartner: iTomatoTopping
hasFunctionValue: 0.95
- hasCombinationPartner: iMeatTopping
hasFunctionValue: 0.5
```
Further example: see [regional-rules.owl.yml](examples/regional-rules.owl.yml)
## SWRL Rules
Semantic Web Rule Language (SWRL) rules can be defined with the keyword `swrl_rule`.
See [regional-rules.owl.yml](examples/regional-rules.owl.yml) for example usages.
## Proxy Individuals
The python package [`owlready2`](https://owlready2.readthedocs.io) and most owl reasoners do not support meta classes (also called "punning"). However, sometimes it is necessary to express knowledge which refers to a class and not primarily to its instances. This can be modeled with "proxy individuals". yamlpyowl has the following optional keyword for this: `__create_proxy_individual`. Allowed values are `True`, `recursive`, and `False` (default). The respective individuals have the name `i`.
## Command Line Interface
yamlpyowl comes with a command line interface which is automatically installed via pip. Main purpose: simple conversion from yaml to rdfxml format. See `yamlpyowl --help` for more information.
# Documentation
Ordinary documentation does not yet exist. However, the following might be at least somewhat useful:
- [demo notebook of the zebra puzzle](doc/demo_notebooks/zebra_puzzle.ipynb),
- [unittests](tests/test_core.py),
- [docstrings and type hints in core.py](src/yamlpyowl/core.py).
# Requirements
- python >= 3.8
- java
- (installed automatically via pip)
The docker container which provides the runtime environment for unittests is available here: [carvk/java_python](https://hub.docker.com/repository/docker/carvk/java_python).
# Installation
## Install for Normal Usage
- Run `pip install yamlpyowl` to install the latest officially released version
## Install Directly from Source Repo
- Clone the repo
- Run `pip install -e .` from the project root
- This installs in "editable mode" best suited for experimenting and hacking.
# Development Status
Yamlpyowl is currently an early prototype and will likely be expanded (and changed) in the future. If you are interested in using this package in your project as a dependency or in contributing to Yamlpyowl please open an issue or contact the author. The same holds for feature requests and bug reports.
# Contribution
Contributions in form of issues or pull requests are highly welcome. If you submit code please ensure that this project uses automatic code formatting with the tool [black](https://github.com/psf/black), more precisely: `black -l 120 src`.
# Misc remarks
- There exists at least one earlier similar tool: [yaml2owl](https://github.com/leifw/yaml2owl), written in haskel.