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| author | Munyoki Kilyungi | 2024-01-10 13:51:12 +0300 |
|---|---|---|
| committer | BonfaceKilz | 2024-01-10 13:56:55 +0300 |
| commit | 5295c4d9d7e7c17dcbb8127d6f4b6c67aad6baa7 (patch) | |
| tree | 8841e31ce1a8981728821cc61a65f967f6eb5800 /gn3 | |
| parent | a3f0be01324f0e9430e6376e70537a8c90a41378 (diff) | |
| download | genenetwork3-5295c4d9d7e7c17dcbb8127d6f4b6c67aad6baa7.tar.gz | |
Optionally fetch dataset metadata if provided during genotype fetch.
* gn3/api/metadata.py (genotypes): If a dataset name is provided fetch
the group it belongs to and the dataset's full and short name.
Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>
Diffstat (limited to 'gn3')
| -rw-r--r-- | gn3/api/metadata.py | 26 |
1 files changed, 22 insertions, 4 deletions
diff --git a/gn3/api/metadata.py b/gn3/api/metadata.py index 7657fe3..dcb06f4 100644 --- a/gn3/api/metadata.py +++ b/gn3/api/metadata.py @@ -491,7 +491,8 @@ CONSTRUCT { @metadata.route("/genotypes/<name>", methods=["GET"]) -def genotypes(name): +@metadata.route("/genotypes/<dataset>/<name>", methods=["GET"]) +def genotypes(name, dataset=""): """Fetch a genotype's metadata given it's name""" try: _query = Template(""" @@ -499,7 +500,11 @@ $prefix CONSTRUCT { ?genotype ?predicate ?object . + ?genotype dcat:dataset ?dataset . ?species gnt:shortName ?speciesShortName . + ?dataset rdfs:label ?datasetName ; + skos:prefLabel ?datasetFullName ; + gnt:belongsToGroup ?groupName . } WHERE { ?genotype rdf:type gnc:Genotype ; rdfs:label "$name" ; @@ -508,8 +513,17 @@ CONSTRUCT { ?species ^gnt:belongsToSpecies ?genotype ; gnt:shortName ?speciesShortName . } . + OPTIONAL { + ?dataset rdf:type dcat:Dataset ; + (rdfs:label|dct:identifier|skos:prefLabel) "$dataset" ; + rdfs:label ?datasetName ; + skos:prefLabel ?datasetFullName ; + gnt:belongsToGroup ?inbredSet . + ?inbredSet rdfs:label ?groupName . + } . } -""").substitute(prefix=RDF_PREFIXES, name=name) +""").substitute(prefix=RDF_PREFIXES, + name=name, dataset=dataset) _context = { "@context": BASE_CONTEXT | { "rdfs": "http://www.w3.org/2000/01/rdf-schema#", @@ -519,6 +533,10 @@ CONSTRUCT { "xsd": "http://www.w3.org/2001/XMLSchema#", "name": "rdfs:label", "chr": "gnt:chr", + "skos": "http://www.w3.org/2004/02/skos/core#", + "prefLabel": "skos:prefLabel", + "dcat": "http://www.w3.org/ns/dcat#", + "dataset": "dcat:dataset", "mb": "gnt:mb", "mbMm8": "gnt:mbMm8", "mb2016": "gnt:mb2016", @@ -528,6 +546,7 @@ CONSTRUCT { "speciesName": "gnt:shortName", "alternateSource": "gnt:hasAltSourceName", "comments": "rdfs:comments", + "group": "gnt:belongsToGroup", "chrNum": { "@id": "gnt:chrNum", "@type": "xsd:int", @@ -959,8 +978,7 @@ CONSTRUCT { ?species gnt:shortName ?speciesShortName . } . } -""").substitute(prefix=RDF_PREFIXES, - name=name, dataset=dataset) +""").substitute(prefix=RDF_PREFIXES, name=name, dataset=dataset) _context = { "@context": BASE_CONTEXT | { "alias": "skos:altLabel", |