Fix metpo-base.* empty-artifact bug; protect against ODK 1.6 import management

Adds metpo.Makefile override for $(ONT)-base.owl to use
--base-iri $(URIBASE)/metpo (lowercase) instead of the generated
$(URIBASE)/METPO (uppercase). The uppercase form matched no METPO
terms (all IRIs are https://w3id.org/metpo/<id>), silently producing
empty base artifacts. Re-applies the fix from
#463 which the Makefile
regeneration in the ODK upgrade reverted.

Also updates the comment on the $(ONT).owl / $(ONT).json overrides
to accurately describe the uribase design tension rather than calling
it an ODK template bug.

Adds manage_import_declarations: FALSE to metpo-odk.yaml. ODK 1.6
introduced automatic rewriting of owl:imports in the edit file during
update_repo; this flag disables that step, preventing failures if
update_repo is run with the current uribase: https://w3id.org config.

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>

Author: turbomam

src/ontology/metpo-odk.yaml

@@ -43,4 +43,5 @@ components:
 use_dosdps: FALSE
 use_mappings: FALSE
 use_edit_file_imports: FALSE
+manage_import_declarations: FALSE
 uribase: https://w3id.org

src/ontology/metpo.Makefile

@@ -119,10 +119,15 @@ components/metpo_sheet.owl: ../templates/stubs.tsv ../templates/metpo-properties
 		--annotation owl:versionInfo $(TODAY) \
 		convert -f ofn --output $@.tmp.owl && mv $@.tmp.owl $@
 
-# Upstream ODK template bug: $(ONT).owl and $(ONT).json use $(URIBASE)/$@
-# which expands to https://w3id.org/metpo.owl (missing /metpo/ path segment).
-# Correct IRI is https://w3id.org/metpo/metpo.owl = $(ONTBASE)/$@.
-# Remove these overrides once the ODK template is fixed upstream.
+# The generated $(ONT).owl and $(ONT).json recipes use $(URIBASE)/$@ which
+# expands to https://w3id.org/metpo.owl — wrong (missing /metpo/ path segment).
+# The correct IRI is https://w3id.org/metpo/metpo.owl = $(ONTBASE)/$@.
+# Root cause: metpo-odk.yaml sets uribase: https://w3id.org (the bare domain)
+# because the ODK Python tooling derives ONTBASE as $(URIBASE)/$(id), and
+# changing uribase to https://w3id.org/metpo would give ONTBASE
+# https://w3id.org/metpo/metpo (double segment) and break all sub-artifact IRIs.
+# These recipe overrides are the correct long-term fix until ODK provides a way
+# to set URIBASE and ONTBASE independently in the config.
 # Tracked at: https://github.com/berkeleybop/metpo/issues/465
 
 $(ONT).owl: $(ONT)-full.owl
@@ -133,3 +138,18 @@ $(ONT).json: $(ONT).owl
 	$(ROBOT) annotate --input $< --ontology-iri $(ONTBASE)/$@ $(ANNOTATE_ONTOLOGY_VERSION) \
 		convert --check false -f json -o $@.tmp.json &&\
 		mv $@.tmp.json $@
+
+# The generated $(ONT)-base.owl recipe uses --base-iri $(URIBASE)/METPO (uppercase)
+# which matches no METPO terms (all IRIs are lowercase https://w3id.org/metpo/<id>),
+# silently producing empty base artifacts. Fixed in https://github.com/berkeleybop/metpo/issues/463
+# and tracked as a known ODK upgrade regression in https://github.com/berkeleybop/metpo/issues/465.
+$(ONT)-base.owl: $(EDIT_PREPROCESSED) $(OTHER_SRC) $(IMPORT_FILES)
+	$(ROBOT_RELEASE_IMPORT_MODE) \
+	reason --reasoner $(REASONER) --equivalent-classes-allowed asserted-only --exclude-tautologies structural --annotate-inferred-axioms false \
+	relax $(RELAX_OPTIONS) \
+	reduce -r $(REASONER) $(REDUCE_OPTIONS) \
+	remove --base-iri $(URIBASE)/metpo --axioms external --preserve-structure false --trim false \
+	$(SHARED_ROBOT_COMMANDS) \
+	annotate --link-annotation http://purl.org/dc/elements/1.1/type http://purl.obolibrary.org/obo/IAO_8000001 \
+		--ontology-iri $(ONTBASE)/$@ $(ANNOTATE_ONTOLOGY_VERSION) \
+		--output $@.tmp.owl && mv $@.tmp.owl $@