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"""This module contains db functions that get data related to species or
groups. Particularly useful when generating the menu
"""
from typing import Any, Optional, Tuple
from MySQLdb import escape_string
def get_all_species(conn: Any) -> Optional[Tuple]:
"""Return a list of all species"""
with conn.cursor() as cursor:
cursor.execute("SELECT Name, MenuName FROM Species "
"ORDER BY OrderId")
return cursor.fetchall()
def get_chromosome(name: str, is_species: bool, conn: Any) -> Optional[Tuple]:
"""Given either a group or a species Name, return all the species"""
_sql = ("SELECT Chr_Length.Name, Chr_Length.OrderId, "
"Length FROM Chr_Length, Species WHERE "
"Chr_Length.SpeciesId = Species.SpeciesId AND "
"Species.Name = "
f"'{escape_string(name).decode('UTF-8')}' ORDER BY OrderId")
if not is_species:
_sql = ("SELECT Chr_Length.Name, Chr_Length.OrderId, "
"Length FROM Chr_Length, InbredSet WHERE "
"Chr_Length.SpeciesId = InbredSet.SpeciesId AND "
"InbredSet.Name = "
f"'{escape_string(name).decode('UTF-8')}' ORDER BY OrderId")
with conn.cursor() as cursor:
cursor.execute(_sql)
return cursor.fetchall()
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