From 50349f7e067bd894d4aa4865ded5589ee1fcd9e9 Mon Sep 17 00:00:00 2001
From: Munyoki Kilyungi
Date: Wed, 11 Oct 2023 17:28:09 +0300
Subject: Implement "GET /metadata/datasets/:name".

* gn3/api/metadata.py: Import json, SPARQLWrapper.{JSON, JSONLD}.
(dataset): Rename this to ...
(datasets): ... this.  Return a well formatted JSONLD result from a
dataset.

Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
---
 gn3/db/rdf.py | 42 ------------------------------------------
 1 file changed, 42 deletions(-)

(limited to 'gn3/db')

diff --git a/gn3/db/rdf.py b/gn3/db/rdf.py
index 472da64..c5a75f2 100644
--- a/gn3/db/rdf.py
+++ b/gn3/db/rdf.py
@@ -213,45 +213,3 @@ CONSTRUCT {
     )[0].items():
         result[key] = value
     return result
-
-
-def get_genotype_metadata(
-        sparql_conn: SPARQLWrapper, name: str
-):
-    """Return info about a phenotype with a given NAME"""
-    __metadata_query = """
-$prefix
-
-CONSTRUCT {
-    ?genotype ?pPredicate ?pValue .
-    ?genotype gn:speciesName ?speciesName .
-    ?genotype gn:inbredSetName ?inbredSetBinomialName .
-    ?genotype gn:datasetName ?datasetFullName .
-} WHERE {
-    ?genotype ?pPredicate ?pValue .
-    OPTIONAL {
-        ?genotype gn:genotypeOfDataset ?dataset .
-        ?dataset gn:fullName ?datasetFullName .
-    }.
-    OPTIONAL {
-        ?genotype gn:genotypeOfDataset ?dataset .
-        ?dataset gn:datasetOfInbredSet ?inbredSet .
-        ?inbredSet gn:binomialName ?inbredSetBinomialName .
-        ?inbredSet gn:inbredSetOfSpecies ?species .
-        ?species gn:displayName ?speciesName .
-    } .
-    FILTER( ?genotype = genotype:$name ) .
-    MINUS {
-         ?genotype rdf:type ?pValue .
-    }
-}
-"""
-    result: MonadicDict = MonadicDict()
-    for key, value in sparql_query(
-            sparql_conn,
-            Template(__metadata_query)
-            .substitute(name=name,
-                        prefix=RDF_PREFIXES)
-    )[0].items():
-        result[key] = value
-    return result
-- 
cgit 1.4.1