create ANNOTATION_PROPERTIES_ontid

INCATools · Jan 3, 2024 · 9ce8a08 · 9ce8a08
1 parent 17e69d1
commit 9ce8a08
Showing 1 changed file with 4 additions and 2 deletions.
diff --git a/template/src/ontology/Makefile.jinja2 b/template/src/ontology/Makefile.jinja2
@@ -469,24 +469,26 @@ $(IMPORTDIR)/{{ ont.id }}_import.owl: {% if project.import_group.use_base_mergin
 		query --update ../sparql/inject-subset-declaration.ru --update ../sparql/inject-synonymtype-declaration.ru --update ../sparql/postprocess-module.ru \
 		$(ANNOTATE_CONVERT_FILE); fi
 {% elif ('filter' == ont.module_type) or (ont.module_type is none and 'filter' == project.import_group.module_type) %}
+{%- if ont.annotation_properties is defined -%}ANNOTATION_PROPERTIES_{{ ont.id }}={% for p in ont.annotation_properties %}{{ p }} {% endfor %}{% endif %}
 $(IMPORTDIR)/{{ ont.id }}_import.owl: {% if project.import_group.use_base_merging %}$(MIRRORDIR)/merged.owl{% else %}$(MIRRORDIR)/{{ ont.id }}.owl{% endif %} $(IMPORTDIR)/{{ ont.id }}_terms_combined.txt
 	if [ $(IMP) = true ]{% if ont.is_large %} && [ $(IMP_LARGE) = true ]{% endif %}; then $(ROBOT) {% if ont.is_large %}extract -i $< -T $(IMPORTDIR)/{{ ont.id }}_terms_combined.txt --copy-ontology-annotations true --force true --method BOT \{% else %}query -i $< --update ../sparql/preprocess-module.ru \
     extract -T $(IMPORTDIR)/{{ ont.id }}_terms_combined.txt --copy-ontology-annotations true --force true --method BOT \{% endif %}
     remove {% if ont.base_iris is not none %}{% for iri in ont.base_iris %}--base-iri {{ iri }} {% endfor %}{% else %}--base-iri $(OBOBASE)/{{ ont.id.upper() }} {% endif %}--axioms external --preserve-structure false --trim false \
-		remove $(patsubst %, --term %, $(ANNOTATION_PROPERTIES)) -T $(IMPORTDIR)/{{ ont.id }}_terms_combined.txt --select complement \
+		remove $(patsubst %, --term %, $(ANNOTATION_PROPERTIES)) {% if ont.annotation_properties is defined %}$(patsubst %, --term %, $(ANNOTATION_PROPERTIES_{{ ont.id }})){% endif %} -T $(IMPORTDIR)/{{ ont.id }}_terms_combined.txt --select complement \
 		query --update ../sparql/inject-subset-declaration.ru --update ../sparql/inject-synonymtype-declaration.ru --update ../sparql/postprocess-module.ru \
 		$(ANNOTATE_CONVERT_FILE); fi
 {% elif ('mirror' == ont.module_type) or (ont.module_type is none and 'mirror' == project.import_group.module_type) %}
 $(IMPORTDIR)/{{ ont.id }}_import.owl: {% if project.import_group.use_base_merging %}$(MIRRORDIR)/merged.owl{% else %}$(MIRRORDIR)/{{ ont.id }}.owl{% endif %} $(IMPORTDIR)/{{ ont.id }}_terms_combined.txt
 	if [ $(IMP) = true ]{% if ont.is_large %} && [ $(IMP_LARGE) = true ]{% endif %}; then $(ROBOT) merge -i $< {% if not ont.is_large %}query --update ../sparql/preprocess-module.ru --update ../sparql/inject-subset-declaration.ru --update ../sparql/inject-synonymtype-declaration.ru --update ../sparql/postprocess-module.ru {% endif %} \
     $(ANNOTATE_CONVERT_FILE); fi
 {% elif ('minimal' == ont.module_type) or (ont.module_type is none and 'minimal' == project.import_group.module_type) %}
+{%- if ont.annotation_properties is defined -%}ANNOTATION_PROPERTIES_{{ ont.id }}={% for p in ont.annotation_properties %}{{ p }} {% endfor %}{% endif %}
 $(IMPORTDIR)/{{ ont.id }}_import.owl: {% if project.import_group.use_base_merging %}$(MIRRORDIR)/merged.owl{% else %}$(MIRRORDIR)/{{ ont.id }}.owl{% endif %} $(IMPORTDIR)/{{ ont.id }}_terms_combined.txt
 	if [ $(IMP) = true ]{% if ont.is_large %} && [ $(IMP_LARGE) = true ]{% endif %}; then $(ROBOT) {% if ont.is_large %}extract -i $< -T $(IMPORTDIR)/{{ ont.id }}_terms_combined.txt --copy-ontology-annotations true --force true --method BOT \{% else %}query -i $< --update ../sparql/preprocess-module.ru \
     extract -T $(IMPORTDIR)/{{ ont.id }}_terms_combined.txt --copy-ontology-annotations true --force true --method BOT \{% endif %}
 		remove {% if ont.base_iris is not none %}{% for iri in ont.base_iris %}--base-iri {{iri}} {% endfor %}{% else %}--base-iri $(OBOBASE)/{{ ont.id.upper() }} {% endif %}--axioms external --preserve-structure false --trim false \
 		query --update ../sparql/inject-subset-declaration.ru --update ../sparql/inject-synonymtype-declaration.ru \
-		remove $(patsubst %, --term %, $(ANNOTATION_PROPERTIES)) -T $(IMPORTDIR)/{{ ont.id }}_terms_combined.txt --select complement --select "classes individuals annotation-properties" \
+		remove $(patsubst %, --term %, $(ANNOTATION_PROPERTIES)) {% if ont.annotation_properties is defined %}$(patsubst %, --term %, $(ANNOTATION_PROPERTIES_{{ ont.id }})){% endif %} -T $(IMPORTDIR)/{{ ont.id }}_terms_combined.txt --select complement --select "classes individuals annotation-properties" \
 		$(ANNOTATE_CONVERT_FILE); fi
 {% elif ('custom' == ont.module_type) or (ont.module_type is none and 'custom' == project.import_group.module_type) %}
 $(IMPORTDIR)/{{ ont.id }}_import.owl: {% if project.import_group.use_base_merging %}$(MIRRORDIR)/merged.owl{% elif 'no_mirror' != ont.mirror_type %}$(MIRRORDIR)/{{ ont.id }}.owl{% endif %}