From eb89ed6a503cf6e0d2f10f0352500aa133f5d403 Mon Sep 17 00:00:00 2001
From: Caroline Eastwood <ce12@sanger.ac.uk>
Date: Tue, 13 May 2025 11:52:06 +0100
Subject: [PATCH 1/2] Add the Human Developmental Stages ontology

Related to #164
This PR adds the Human Developmental Stages ontology to Ubergraph, as requested by @dosumis .
---
 README.md               | 1 +
 non-base-ontologies.txt | 2 ++
 2 files changed, 3 insertions(+)

diff --git a/README.md b/README.md
index 6cc2ce6..ef76754 100644
--- a/README.md
+++ b/README.md
@@ -43,6 +43,7 @@ Ubergraph paper presented at ICBO 2022: https://doi.org/10.5281/zenodo.7249759
   - Zebrafish anatomy and development ontology (ZFA)
   - Ascomycete phenotype ontology (APO)
   - Mouse Developmental Stages (MmusDV)
+  - Human Developmental Stages (HsapDv)
   - Vertebrate Breed Ontology (VBO)
   - Units of Measurement Ontology (UO)
 - Precomputed OWL classification (class hierarchy)
diff --git a/non-base-ontologies.txt b/non-base-ontologies.txt
index 3948dbf..a3f307f 100644
--- a/non-base-ontologies.txt
+++ b/non-base-ontologies.txt
@@ -4,3 +4,5 @@ http://purl.obolibrary.org/obo/mmusdv.owl
 http://purl.obolibrary.org/obo/po.owl
 http://purl.obolibrary.org/obo/ppo.owl
 https://proconsortium.org/download/current/pro_nonreasoned.obo
+http://purl.obolibrary.org/obo/hsapdv.owl
+

From f0d1faa2e27af5bc274ebee4f80afe4bf05152aa Mon Sep 17 00:00:00 2001
From: Jim Balhoff <balhoff@gmail.com>
Date: Tue, 13 May 2025 13:25:03 +0000
Subject: [PATCH 2/2] Create base for hsapdv.

---
 Makefile | 16 +++++++++++++++-
 1 file changed, 15 insertions(+), 1 deletion(-)

diff --git a/Makefile b/Makefile
index 506acbf..7f4b17d 100644
--- a/Makefile
+++ b/Makefile
@@ -12,7 +12,7 @@ NONBASE_ONTOLOGIES := $(shell cat "ontologies.txt")
 
 all: ubergraph.jnl.gz ubergraph.nq.gz redundant-graph-table.tgz nonredundant-graph-table.tgz ontologies-merged.ofn.gz #ubergraph-oxigraph.tgz
 
-mirror: ontologies.txt pr-base.owl po-base.owl ppo-base.owl apo-base.owl mmusdv-base.owl foodon-base.owl to-base.owl peco-base.owl mro-base.owl hao-base.owl clao-base.owl oarcs-base.owl ubergraph-axioms.ofn
+mirror: ontologies.txt pr-base.owl po-base.owl ppo-base.owl apo-base.owl mmusdv-base.owl hsapdv-base.owl foodon-base.owl to-base.owl peco-base.owl mro-base.owl hao-base.owl clao-base.owl oarcs-base.owl ubergraph-axioms.ofn
 	mkdir -p $@ && cd $@ &&\
 	xargs -n 1 curl --retry 5 -L -O <../ontologies.txt &&\
 	cp ../pr-base.owl pr-base.owl &&\
@@ -20,6 +20,7 @@ mirror: ontologies.txt pr-base.owl po-base.owl ppo-base.owl apo-base.owl mmusdv-
 	cp ../ppo-base.owl ppo-base.owl &&\
 	cp ../apo-base.owl apo-base.owl &&\
 	cp ../mmusdv-base.owl mmusdv-base.owl &&\
+	cp ../hsapdv-base.owl hsapdv-base.owl &&\
 	cp ../foodon-base.owl foodon-base.owl &&\
 	cp ../to-base.owl to-base.owl &&\
 	cp ../peco-base.owl peco-base.owl &&\
@@ -100,6 +101,19 @@ mmusdv-base.owl: mmusdv.owl
 		--trim false \
 		--output $@
 
+hsapdv.owl:
+	curl -L -O 'http://purl.obolibrary.org/obo/hsapdv.owl'
+
+hsapdv-base.owl: hsapdv.owl
+	$(ROBOT) remove --input $< \
+		--base-iri 'http://purl.obolibrary.org/obo/HsapDv_' \
+		--axioms external \
+		--preserve-structure false \
+		--trim false \
+		remove --select imports \
+		--trim false \
+		--output $@
+
 foodon.owl:
 	curl -L -O 'http://purl.obolibrary.org/obo/foodon.owl'