Merge pull request #521 from monarch-initiative/panther_pombase_fix

Update pombase curie prefix in ingest & tests
monarch-initiative · Sep 23, 2023 · 0f47ae2 · 0f47ae2
2 parents 6d4bb7e + 150f933
commit 0f47ae2
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diff --git a/src/monarch_ingest/ingests/panther/orthology_utils.py b/src/monarch_ingest/ingests/panther/orthology_utils.py
@@ -50,7 +50,7 @@ def ncbitaxon_by_name(species_tag: str) -> Optional[str]:
     "FlyBase": "FB",
     "Ensembl": "ENSEMBL",
     "EnsemblGenome": "ENSEMBL",  # TODO: review and fix this later?
-    "PomBase": "POMBASE",
+    "PomBase": "PomBase",
     "WormBase": "WB",  # Wormbase supports 'WormBase:' but alliancegenome.org and identifiers.org supports 'WB:'
     "GeneID": "NCBIGene",          # seems to be Entrez Gene ID => map onto the NCBIGene: namespace
     "Gene": None,                  # seems to be the gene symbol - we ignore it for now?

diff --git a/tests/unit/panther/test_genome_orthologs.py b/tests/unit/panther/test_genome_orthologs.py
@@ -49,7 +49,7 @@ def script():
         "RO:HOM0000017",
         "PANTHER.FAMILY:PTHR12434",
     ],
-    "POMBASE:SPAC20G8.06": [
+    "PomBase:SPAC20G8.06": [
         "ZFIN:ZDB-GENE-040915-1",
         "NCBITaxon:7955",
         "NCBITaxon:4896",