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Merged
balhoff merged 2 commits into from
May 13, 2025
Merged

Add hsapdv ontology #166

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eb89ed6
Add the Human Developmental Stages ontology
Caroline-99 May 13, 2025
f0d1faa
Create base for hsapdv.
balhoff May 13, 2025
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16 changes: 15 additions & 1 deletion Makefile
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Expand Up @@ -12,14 +12,15 @@ 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 &&\
cp ../po-base.owl po-base.owl &&\
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 &&\
Expand Down Expand Up @@ -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'

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1 change: 1 addition & 0 deletions README.md
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Expand Up @@ -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)
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2 changes: 2 additions & 0 deletions non-base-ontologies.txt
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Expand Up @@ -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