diff options
Diffstat (limited to 'gn3/auth/authorisation/data/views.py')
| -rw-r--r-- | gn3/auth/authorisation/data/views.py | 29 |
1 files changed, 29 insertions, 0 deletions
diff --git a/gn3/auth/authorisation/data/views.py b/gn3/auth/authorisation/data/views.py index a9861d2..81b3e2f 100644 --- a/gn3/auth/authorisation/data/views.py +++ b/gn3/auth/authorisation/data/views.py @@ -28,6 +28,7 @@ from gn3.auth.authorisation.resources.models import ( from gn3.auth.authentication.oauth2.resource_server import require_oauth +from gn3.auth.authorisation.data.phenotypes import link_phenotype_data from gn3.auth.authorisation.data.mrna import link_mrna_data, ungrouped_mrna_data from gn3.auth.authorisation.data.genotypes import ( link_genotype_data, ungrouped_genotype_data) @@ -246,3 +247,31 @@ def link_mrna() -> Response: return jsonify(with_db_connection( partial(__link__, **__values__(request.json)))) + +@data.route("/link/phenotype", methods=["POST"]) +def link_phenotype() -> Response: + """Link phenotype data to group.""" + def __values__(form): + if not bool(form.get("species_name", "").strip()): + raise InvalidData("Expected 'species_name' not provided.") + if not bool(form.get("group_id")): + raise InvalidData("Expected 'group_id' not provided.",) + try: + _group_id = uuid.UUID(form.get("group_id")) + except TypeError as terr: + raise InvalidData("Expected a UUID for 'group_id' value.") from terr + if not bool(form.get("selected")): + raise InvalidData("Expected at least one dataset to be provided.") + return { + "group_id": uuid.UUID(form["group_id"]), + "traits": form["selected"] + } + + with gn3db.database_connection(app.config["SQL_URI"]) as gn3conn: + def __link__(conn: db.DbConnection, group_id: uuid.UUID, + traits: tuple[dict, ...]) -> dict: + return link_phenotype_data( + conn, gn3conn, group_by_id(conn, group_id), traits) + + return jsonify(with_db_connection( + partial(__link__, **__values__(request.json)))) |