Homolog object is missing taxon key

[selewis]

For this query
http://localhost:8888/api/bioentity/gene/HGNC:11593/homologs/?homology_type=O&fetch_objects=false

The JSON returned is this and clearly the taxon for zfin is missing :
{'id': '11d97a53-bf91-477e-89e2-340f94e8264e', 'subject': {'id': 'NCBIGene:347853', 'label': 'TBX10', 'taxon': {'id': 'NCBITaxon:9606', 'label': 'Homo sapiens'}}, 'object': {'id': 'ZFIN:ZDB-GENE-121228-1', 'label': 'tbx10'}, 'negated': False, 'relation': {'id': 'RO:HOM0000017', 'label': 'in orthology relationship with'}, 'publications': [{'id': 'PMID:22915831'}], 'provided_by': ['https://data.monarchinitiative.org/ttl/zfin.ttl'], 'evidence': ['MONARCH:ba21515e9db29392', 'PMID:22915831', 'ECO:0000031', 'NCBIGene:347853', 'ZFIN:ZDB-GENE-121228-1'], 'evidence_graph': {'nodes': [{'id': 'ECO:0000031', 'lbl': 'protein BLAST evidence used in manual assertion', 'meta': {}}, {'id': 'MONARCH:ba21515e9db29392', 'lbl': None, 'meta': {}}, {'id': 'ZFIN:ZDB-GENE-121228-1', 'lbl': 'tbx10', 'meta': {}}, {'id': 'PMID:22915831', 'lbl': 'Ahn et al; Evolution of the Tbx6/16 Subfamily Genes in Vertebrates: Insights from Zebrafish; Mol. Biol. Evol.; 2012; 29(12); 3959-3983', 'meta': {}}, {'id': 'NCBIGene:347853', 'lbl': 'TBX10', 'meta': {}}], 'edges': [{'sub': 'MONARCH:ba21515e9db29392', 'obj': 'PMID:22915831', 'pred': 'dc:source', 'meta': {'isDefinedBy': ['https://data.monarchinitiative.org/ttl/zfin.ttl'], 'lbl': ['Source'], 'equivalentOriginalNodeTarget': ['http://zfin.org/ZDB-PUB-120830-8']}}, {'sub': 'ZFIN:ZDB-GENE-121228-1', 'obj': 'NCBIGene:347853', 'pred': 'RO:HOM0000017', 'meta': {'owlType': ['Annotation'], 'isDefinedBy': ['https://data.monarchinitiative.org/ttl/zfin.ttl'], 'lbl': ['in orthology relationship with']}}, {'sub': 'MONARCH:ba21515e9db29392', 'obj': 'NCBIGene:347853', 'pred': 'OBAN:association_has_object', 'meta': {'isDefinedBy': ['https://data.monarchinitiative.org/ttl/zfin.ttl'], 'lbl': ['association has object']}}, {'sub': 'MONARCH:ba21515e9db29392', 'obj': 'PMID:22915831', 'pred': 'dc:source', 'meta': {'isDefinedBy': ['https://data.monarchinitiative.org/ttl/zfin.ttl'], 'lbl': ['Source']}}, {'sub': 'MONARCH:ba21515e9db29392', 'obj': 'ZFIN:ZDB-GENE-121228-1', 'pred': 'OBAN:association_has_subject', 'meta': {'isDefinedBy': ['https://data.monarchinitiative.org/ttl/zfin.ttl'], 'lbl': ['association has subject']}}, {'sub': 'MONARCH:ba21515e9db29392', 'obj': 'ECO:0000031', 'pred': 'RO:0002558', 'meta': {'isDefinedBy': ['https://data.monarchinitiative.org/ttl/zfin.ttl'], 'lbl': ['has evidence']}}], 'meta': {'query': 'monarch:cypher/gene-homology.yaml'}}}

[selewis]

For that same query there were also zfin hits with the taxon keys, but the values are null

[cmungall]

Do you mean to query using type O? The main panther types are P, O and LDO. We should perhaps make the O query also query LDO, but now it's the asserted link.

I'm not sure if this related, but querying using O appears to be broken right now... I get an internal server error when I try your query on the public server. It's always a good idea to check both to be sure it's not something introduced in local code.

I'm seeing the taxon IDs in the public server too

[cmungall]

I can't reproduce this

[selewis]

I just tried it and now the taxon is there, but the values are null. Better, but not ideal
(index 14 of hits)

Use of O was deliberate. We discussed and that was the choice at the time.

[cmungall]

I just tried it and now the taxon is there, but the values are null

Which values? I tried

https://api.monarchinitiative.org/api/bioentity/gene/HGNC:11593/homologs/?homology_type=O&fetch_objects=false

looks like taxon information and the gene id and label is there.

there is an annoying issue where it reports null values for inapplicable fields or unpopulated fields, but that has nothing to do with this ticket?

Better, but not ideal (index 14 of hits)

Not sure what you mean

Use of O was deliberate. We discussed and that was the choice at the time.

I don't understand why you would not want LDO too