'direct' subclasses are not included when 'all' subclasses are requested for anonymous class expressions

[balhoff]

Using ELK 0.6.0, if you submit a DL query using an anonymous class expression, 'direct' subclasses (direct=true) are not included when 'all' subclasses (direct=false) are requested.

To reproduce:

• Load http://purl.obolibrary.org/obo/cl/releases/2024-05-15/cl.owl into Protege 5.6.4
• Select ELK 0.6.0 and start the reasoner
• In the DL query tab, query "part of some hippocampal granule cell"
• With the 'Subclasses' result checked, there are no results.
• With the 'Direct subclasses' result checked, there is one result: hippocampal mossy fiber

I also reproduced this in code using, e.g., reasoner.getSubClasses(expression, false)

The same issue seems to apply to getSuperClasses.

[ykazakov]

@balhoff thanks for the report!
I reproduced the problem for pizza.owl and DL query hasTopping some MeatTopping.