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"""This class contains functions relating to trait data manipulation"""
from typing import Any
def get_trait_csv_sample_data(conn: Any,
trait_name: int, phenotype_id: int):
"""Fetch a trait and return it as a csv string"""
sql = ("SELECT Strain.Id, PublishData.Id, Strain.Name, "
"PublishData.value, "
"PublishSE.error, NStrain.count FROM "
"(PublishData, Strain, PublishXRef, PublishFreeze) "
"LEFT JOIN PublishSE ON "
"(PublishSE.DataId = PublishData.Id AND "
"PublishSE.StrainId = PublishData.StrainId) "
"LEFT JOIN NStrain ON (NStrain.DataId = PublishData.Id AND "
"NStrain.StrainId = PublishData.StrainId) WHERE "
"PublishXRef.InbredSetId = PublishFreeze.InbredSetId AND "
"PublishData.Id = PublishXRef.DataId AND "
"PublishXRef.Id = %s AND PublishXRef.PhenotypeId = %s "
"AND PublishData.StrainId = Strain.Id Order BY Strain.Name")
csv_data = ["Strain Id,Strain Name,Value,SE,Count"]
publishdata_id = ""
with conn.cursor() as cursor:
cursor.execute(sql, (trait_name, phenotype_id,))
for record in cursor.fetchall():
(strain_id, publishdata_id,
strain_name, value, error, count) = record
csv_data.append(
",".join([str(val) if val else "x"
for val in (strain_id, strain_name,
value, error, count)]))
return f"# Publish Data Id: {publishdata_id}\n\n" + "\n".join(csv_data)
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