ontology | Working directory for ontology

Im trying to query a knowledge graph and im trying print the max occurrence of ?n in the result and i have tried running following query but it just doesn't prints anything

here is my SPARQL Query

I have downloaded the corpus of articles Aminar DBLP Version 11. The corpus is a huge text file (12GB) which each line is a self-contained JSON string:

I have following concepts in turtle file. I would like to extract preferred label and ids for parent node (DOID_4159) and all its child from below concepts. I have written following SPARQL query to fetch the information, but it will not give all the child nodes.

I need to develop an ontology in computational biochemistry and molecular dynamics. For this, I have collected the terms that is going to be used and attempted to reuse ontologies by searching the terms on ontology search service, such as EBI-OLS. Some terms are very relevant to import/reuse, however, the ontology itself is intended for a more specific domain, such as National Cancer Institute Thesaurus (which has 171,081 classes). Other than that, there are other 10 source ontologies that I could potentially reuse. Some of them are also huge, such as EDAM ontology.

1. Is it okay to reuse ontology that seemingly intended for a more specific domain, such as cancer? We will use the ontology for a more generic use in life science, not only cancer-related domain.

2. Is there any general rule of thumb on which of those 10-ish ontologies that are suitable for reuse? (e.g., the paper describing that ontology should be cited by at least n number of papers, or it should be compatible with Open Biological and Biomedical Ontology (OBO) Foundry principles, or it should be backed by a well-known institution and still maintained).

3. How to decide the sweet spot on the number of ontology sources one can based on? While we can reuse as much available terms as we can (from many ontology sources, especially in life science domain), there is a concern that it would make the resulting knowledge graph representation much more complex.

Thank you for your answers.

I'm trying to compile my Rust code on my M1 Mac for a x86_64 target with linux. I use Docker to achieve that.

My Dockerfile:

I want to programmatically get explanations for inferred axioms in consistent ontologies, in a similar manner that one can do in the Protégé UI. I cannot find any straightforward way. I have found the owlexplanation repo, but I cannot for the life of me solve the dependency issues to set up the owlexplanation environment. I have also browsed the javadoc of owlapi regarding explanations (to avoid the other repo altogether), but I don't see anything useful beyond what I can already see browsing the Java source code.

I have thought of simply negating the inferred axiom, to get explanations through inconsistencies, but I would prefer something cleaner, and I am not sure this approach is correct anyway.

Other (possibly) useful context:

• I had used some Java years ago, but I now primarily use Python (I try to use OWL API with JPype and OWL in general with Owlready2).
• I am using HermiT reasoner (again through JPype) (according to build.xml file, latest stable version 1.3.8).
• I have managed to get explanations for unsatisfiability and inconsistency in my setup, without owlexplanation, following this example from the HermiT source code.
• I fell in the rabbit hole wanting to make a usable .jar file for owlexplanation, in order to add it in my JPype classpath. My plan went sideways when I couldn't get the Java project to build in the first place.
• I am using Intellij IDE.

I would appreciate any insight or tips.

UPDATE Jan 6, 2022:

I decided to try once more with the owlexplanation code with a clean head so here is where I am at:

• Downloaded the source code from github and extracted the zip.
• Started IntelliJ and instead from "Creating a project from Existing sources", I clicked "Open" and selected the extracted directory.
• I built the project and it did successfully.
• From Maven tools, I run clean, validate, compile and test succesfully.
• If I run "package" Maven action, it throws as error that "The environment variable JAVA_HOME is not correctly set". The thing is that if I go File>Project Structure, I see that SDK is set to 11, it's not empty.
• Additionally, from the pom.xml file I get these problems:
  • Plugin 'org.apache.maven.plugins:maven-gpg-plugin:1.5' not found
  • Plugin 'org.sonatype.plugins:nexus-staging-maven-plugin:1.6.6' not found

UPDATE Jan 8, 2022: (Trying @Ignazio's answer)

I created a new IntelliJ project, and added the Maven dependencies @Ignazio mentioned (plus some others like slf4j etc) and I got a working example (I think). Moving to my main project (using JPype), I had to manually download some .jars to include in the classpath (as maven can't be used here). These are the ones downloaded so far:

I'm using wordcloud==1.8.1 to render a plot with multiple wordclouds,
each one beeing a bar in a bar chart.

Basically just adding some subplots like this:

I have an owl/rdf schema with object properties with range restrictions, and I'm unable to get with the Jena API the effective range class.

I would like to get the classes which are defined in the ontology as the range of a property. For example, with the following schema:

I am using code from this biostars post to get myself more acquainted with creating plots in ggplot. I am a bit stuck on setting the legend variables though

Is there a way to set the colour and control the number of breaks/dots in the legend (under numDEInCat)