Set up NMDC environmental context subsets with Protege 5.6.4

[turbomam]

To see if that eliminates the creation of new class declarations

• NMDC environmental context bindings, Protege 5.6.3 (old) #1597

AnnotationAssertion(rdfs:seeAlso <http://purl.obolibrary.org/obo/ENVO_03605013> <https://microbiomedata.github.io/submission-schema/EnvBroadScaleSoilEnum/>)

[turbomam]

Next step in consuming the output of ROBOT template execution?

$(SRC): $(PRE_SRC)
	$(OWLTOOLS) $(USECAT) $<  $(patsubst %, --remove-import-declaration $(OBO)/envo/modules/%.owl, $(MODS)) -o $@.tmp
	$(OWLTOOLS) $(USECAT) $@.tmp  $(ALL_MODS_OWL) --merge-support-ontologies -o $@

[turbomam]

I added this to src/envo/Makefile

modules/nmdc_env_context_subset_membership.owl: modules/nmdc_env_context_subset_membership.csv # this CSV will be built in https://github.com/microbiomedata/submission-schema
	$(ROBOT) template --template $< -o $@.tmp.owl && mv $@.tmp.owl $@ # why not just output to $@ ?

It compiles when called explicitly, but not as part of ./run/sh make all yet