Count of all semantic categories

[biolink]

Count of all semantic categories

[cmungall]

There are two types of document in the solr index, entity-oriented and association-oriented. The former uses 'category', the latter '{subject,object}_category'. The counts for the latter should be accurate. the former may only be implemented for searching a subset of types, @kshefchek ?

[lhannest]

Looks good, thanks.

[kshefchek]

I get an error when trying to replicate:
"msg":"undefined field: "category"",

I don't believe this is in the monarch solr schema, which solr server are you using?

[lhannest]

@kshefchek I'm using version 0.2.11 of ontobio.

Chris' suggestion seems to be correct:

results = GolrAssociationQuery(
    rows=0,
    facet_fields=['subject_category', 'object_category']
).exec()
facet_counts = results['facet_counts']
return jsonify(facet_counts)

Which produces:

{
"object_category": {
"anatomy": 1325778,
"biological process": 870753,
"case": 29237,
"disease": 438822,
"family": 22759,
"gene": 13382523,
"genotype": 1239754,
"model": 24848,
"pathway": 300028,
"phenotype": 8589086,
"variant": 7487546
},
"subject_category": {
"case": 21592,
"disease": 273984,
"gene": 8908453,
"genotype": 1471295,
"model": 681489,
"pathway": 1928772,
"publication": 13326444,
"variant": 7099105
}
}

[cmungall]

Ah I just realized this will count instances of usage in a triple, not distinct entities

…

On 18 Jul 2017, at 11:36, Lance Hannestad wrote: @kshefchek I'm using version 0.2.11 of ontobio. Chris' suggestion seems to be correct: ```python results = GolrAssociationQuery( rows=0, facet_fields=['subject_category', 'object_category'] ).exec() facet_counts = results['facet_counts'] return jsonify(facet_counts) ``` Which produces: ``` { "object_category": { "anatomy": 1325778, "biological process": 870753, "case": 29237, "disease": 438822, "family": 22759, "gene": 13382523, "genotype": 1239754, "model": 24848, "pathway": 300028, "phenotype": 8589086, "variant": 7487546 }, "subject_category": { "case": 21592, "disease": 273984, "gene": 8908453, "genotype": 1471295, "model": 681489, "pathway": 1928772, "publication": 13326444, "variant": 7099105 } } ``` -- You are receiving this because you commented. Reply to this email directly or view it on GitHub: #78 (comment)