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authorFrederick Muriuki Muriithi2024-03-29 13:14:14 +0300
committerFrederick Muriuki Muriithi2024-03-29 13:14:14 +0300
commit6326357250711650bc8b4c0b90f8c0b94d72c39e (patch)
tree26bfb9f169f45176dbc439839b7d96d07de52627 /qc_app/db/tissues.py
parent62e54fd5b457d67f3f01a35e28eae94d653d9908 (diff)
downloadgn-uploader-6326357250711650bc8b4c0b90f8c0b94d72c39e.tar.gz
Add UI to select/create tissue.
Diffstat (limited to 'qc_app/db/tissues.py')
-rw-r--r--qc_app/db/tissues.py31
1 files changed, 30 insertions, 1 deletions
diff --git a/qc_app/db/tissues.py b/qc_app/db/tissues.py
index ebf24fd..062e824 100644
--- a/qc_app/db/tissues.py
+++ b/qc_app/db/tissues.py
@@ -1,5 +1,5 @@
"""Handle db interactions for tissue."""
-from typing import Optional
+from typing import Union, Optional
import MySQLdb as mdb
from MySQLdb.cursors import DictCursor
@@ -10,6 +10,7 @@ def all_tissues(conn: mdb.Connection) -> tuple[dict, ...]:
cursor.execute("SELECT * FROM Tissue ORDER BY TissueName")
return tuple(dict(row) for row in cursor.fetchall())
+
def tissue_by_id(conn: mdb.Connection, tissueid: int) -> Optional[dict]:
"""Retrieve a tissue by its ID"""
with conn.cursor(cursorclass=DictCursor) as cursor:
@@ -20,3 +21,31 @@ def tissue_by_id(conn: mdb.Connection, tissueid: int) -> Optional[dict]:
return dict(result)
return None
+
+
+def create_new_tissue(
+ conn: mdb.Connection,
+ name: str,
+ shortname: str,
+ birnlexid: Optional[str] = None,
+ birnlexname: Optional[str] = None
+) -> dict[str, Union[int, str, None]]:
+ """Add a new tissue, organ or biological material to the database."""
+ with conn.cursor() as cursor:
+ cursor.execute(
+ "INSERT INTO "
+ "Tissue(TissueName, Name, Short_Name, BIRN_lex_ID, BIRN_lex_Name) "
+ "VALUES (%s, %s, %s, %s, %s)",
+ (name, name, shortname, birnlexid, birnlexname))
+ tissueid = cursor.lastrowid
+ cursor.execute("UPDATE Tissue SET TissueId=%s WHERE Id=%s",
+ (tissueid, tissueid))
+ return {
+ "Id": tissueid,
+ "TissueId": tissueid,
+ "TissueName": name,
+ "Name": name,
+ "Short_Name": shortname,
+ "BIRN_lex_ID": birnlexid,
+ "BIRN_lex_Name": birnlexname
+ }