From 53515a79203ccc96c211de796d2662af927d8d6f Mon Sep 17 00:00:00 2001
From: costero-e <orildsaga@gmail.com>
Date: Wed, 30 Oct 2024 15:28:25 +0100
Subject: [PATCH] fixing get_biosamples_from_variants

---
 beacon/connections/mongo/g_variants.py | 2 +-
 beacon/connections/mongo/reindex.py    | 8 --------
 2 files changed, 1 insertion(+), 9 deletions(-)

diff --git a/beacon/connections/mongo/g_variants.py b/beacon/connections/mongo/g_variants.py
index 8e3b872..92ac82d 100644
--- a/beacon/connections/mongo/g_variants.py
+++ b/beacon/connections/mongo/g_variants.py
@@ -77,7 +77,7 @@ def get_biosamples_of_variant(self, entry_id: Optional[str], qparams: RequestPar
     try:
         finalids=[]
         for bioid in biosample_id:
-            finalids.append({"id": bioid})
+            finalids.append({"id": bioid["biosampleId"]})
     except Exception:# pragma: no cover
         finalids=[]
     query = {"$and": [{"$or": finalids}]}
diff --git a/beacon/connections/mongo/reindex.py b/beacon/connections/mongo/reindex.py
index 708e112..a40c041 100644
--- a/beacon/connections/mongo/reindex.py
+++ b/beacon/connections/mongo/reindex.py
@@ -33,14 +33,6 @@
     client.beacon.validate_collection("synonyms")
 except Exception:
     db=client.beacon.create_collection(name="synonyms")
-try:
-    client.beacon.validate_collection("caseLevelData")
-except Exception:
-    db=client.beacon.create_collection(name="caseLevelData")
-try:
-    client.beacon.validate_collection("targets")
-except Exception:
-    db=client.beacon.create_collection(name="targets")
 try:
     client.beacon.drop_collection("counts")
 except Exception: