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"""Implement case-attribute manipulations."""
from functools import reduce
from MySQLdb.cursors import DictCursor
from flask import jsonify, Response, Blueprint, current_app
from gn3.db_utils import Connection, database_connection
caseattr = Blueprint("case-attribute", __name__)
@caseattr.route("/<int:inbredset_id>/names", methods=["GET"])
def inbredset_case_attribute_names(inbredset_id: int) -> Response:
"""Retrieve ALL case-attributes for a specific InbredSet group."""
with (database_connection(current_app.config["SQL_URI"]) as conn,
conn.cursor(cursorclass=DictCursor) as cursor):
cursor.execute(
"SELECT * FROM CaseAttribute WHERE InbredSetId=%(inbredset_id)s",
{"inbredset_id": inbredset_id})
return jsonify(tuple(dict(row) for row in cursor.fetchall()))
def __by_strain__(accumulator, item):
attr = {item["CaseAttributeName"]: item["CaseAttributeValue"]}
strain_name = item["StrainName"]
if bool(accumulator.get(strain_name)):
return {
**accumulator,
strain_name: {
**accumulator[strain_name],
"case-attributes": {
**accumulator[strain_name]["case-attributes"],
**attr
}
}
}
return {
strain_name: {
**{
key: value for key,value in item.items()
if key in ("StrainName", "StrainName2", "Symbol", "Alias")
},
"case-attributes": attr
}
}
def __case_attributes_by_inbred_set__(
conn: Connection, inbredset_id: int) -> tuple[dict, ...]:
"""
Retrieve Case-Attributes by their InbredSet ID. Do not call this outside
this module.
"""
cursor.execute(
"SELECT ca.Name AS CaseAttributeName, "
"caxrn.Value AS CaseAttributeValue, s.Name AS StrainName, "
"s.Name2 AS StrainName2, s.Symbol, s.Alias "
"FROM CaseAttribute AS ca "
"INNER JOIN CaseAttributeXRefNew AS caxrn "
"ON ca.CaseAttributeId=caxrn.CaseAttributeId "
"INNER JOIN Strain AS s "
"ON caxrn.StrainId=s.Id "
"WHERE ca.InbredSetId=%(inbredset_id)s "
"ORDER BY StrainName",
{"inbredset_id": inbredset_id})
return tuple(
reduce(__by_strain__, cursor.fetchall(), {}).values())
@caseattr.route("/<int:inbredset_id>/values", methods=["GET"])
def inbredset_case_attribute_values(inbredset_id: int) -> Response:
"""Retrieve the group's (InbredSet's) case-attribute values."""
with database_connection(current_app.config["SQL_URI"]) as conn:
return jsonify(__case_attributes_by_inbred_set__(conn, inbredset_id))
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