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Bugfix: omim.sssom.tsv #102

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merged 1 commit into from
Jul 5, 2023
Merged

Bugfix: omim.sssom.tsv #102

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5 changes: 2 additions & 3 deletions .github/workflows/buid_and_release.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -28,8 +28,7 @@ jobs:
- name: build
# TODO: change to make all when fixed: https://github.com/monarch-initiative/omim/issues/92
run: |
make automated-release-artefacts
# make all
make all
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After confirming the fix worked locally, I reactivated omim.sssom.tsv for the action, ran it, and confirmed it generated a new release successfully with omim.sssom.tsv included.



- name: Release
Expand All @@ -43,4 +42,4 @@ jobs:
# TODO: include omim.sssom.tsv when fixed: https://github.com/monarch-initiative/omim/issues/92
files: |
omim.ttl
# omim.sssom.tsv
omim.sssom.tsv
3 changes: 1 addition & 2 deletions makefile
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@@ -1,9 +1,8 @@
.PHONY: all help install test scrape get-pmids automated-release-artefacts cleanup
.PHONY: all help install test scrape get-pmids cleanup


# MAIN COMMANDS / GOALS ------------------------------------------------------------------------------------------------
all: omim.ttl omim.sssom.tsv
automated-release-artefacts: omim.ttl

# build: Create new omim.ttl
omim.ttl:
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1 change: 1 addition & 0 deletions omim2obo/main.py
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Expand Up @@ -137,6 +137,7 @@ def omim2obo(use_cache: bool = False):

# Populate graph
# - Non-OMIM triples
graph.add((URIRef('http://purl.obolibrary.org/obo/mondo/omim.owl'), RDF.type, OWL.Ontology))
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@matentzn Your suggestion worked.

graph.add((URIRef('http://www.geneontology.org/formats/oboInOwl#hasSynonymType'), RDF.type, OWL.AnnotationProperty))
graph.add((BIOLINK['has_evidence'], RDF.type, OWL.AnnotationProperty))
graph.add((TAX_URI, RDF.type, OWL.Class))
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