Add relation graphs

[balhoff]

It would be useful to compute existential relation graphs for the core bio-ontologies. Some background is here: https://github.com/NCI-Thesaurus/thesaurus-obo-edition/wiki/NCIt-graph-queries

I have a little badly documented tool for computing this: https://github.com/NCI-Thesaurus/ncit-utils

Here's an example: https://github.com/NCATS-Tangerine/ubergraph/blob/e3da8808db424f2009944b54f0c04d5aacac0eb7/Makefile#L25-L29

[balhoff]

At the same time, we should remove generation of DOS-DP-based "property classes", e.g.

pipeline/Makefile

Lines 268 to 276 in ebcb7be

	$(BUILD_DIR)/anatomical-entity-partOf.ofn: $(BUILD_DIR)/anatomical-entities.txt patterns/part_of.yaml
	mkdir -p $(dir $@) \
	&& dosdp-tools generate \
	--generate-defined-class=true \
	--obo-prefixes=true \
	--template=patterns/part_of.yaml \
	--infile=$< \
	--outfile=$@.tmp \
	&& mv $@.tmp $@

We don't want to include these in the output.

However, we do want tbox classes from Phenoscape data (NeXML files).

[balhoff]

Something we need to make sure we do before closing this issue:

• Update presence/absence queries to use the relation graphs