Pre- pydsubmission toForm method.

src/submissions/backend/db/functions/lookups.py

@@ -138,7 +138,7 @@ def lookup_reagent_types(ctx:Settings,
         assert reagent.type != []
         logger.debug(f"Looking up reagent type for {type(kit_type)} {kit_type} and {type(reagent)} {reagent}")
         logger.debug(f"Kit reagent types: {kit_type.reagent_types}")
-        logger.debug(f"Reagent reagent types: {reagent._sa_instance_state}")
+        # logger.debug(f"Reagent reagent types: {reagent._sa_instance_state}")
         result = list(set(kit_type.reagent_types).intersection(reagent.type))
         logger.debug(f"Result: {result}")
         return result[0]

src/submissions/backend/db/models/kits.py

@@ -7,6 +7,7 @@ from sqlalchemy.orm import relationship, validates
 from sqlalchemy.ext.associationproxy import association_proxy
 from datetime import date
 import logging
+from tools import Settings, check_authorization
 
 logger = logging.getLogger(f'submissions.{__name__}')
 
@@ -100,6 +101,11 @@ class KitType(Base):
             map['info'] = {}
         return map
 
+    @check_authorization
+    def save(self, ctx:Settings):
+        ctx.database_session.add(self)
+        ctx.database_session.commit()
+
 class ReagentType(Base):
     """
     Base of reagent type abstract
@@ -265,12 +271,21 @@ class Reagent(Base):
             rtype = reagent_role.name
         except AttributeError:
             rtype = "Unknown"
+        try:
+            expiry = self.expiry.strftime("%Y-%m-%d")
+        except:
+            expiry = date.today()
         return {
             "name":self.name,
             "type": rtype,
             "lot": self.lot,
             "expiry": self.expiry.strftime("%Y-%m-%d")
         }
+    
+    def save(self, ctx:Settings):
+        ctx.database_session.add(self)
+        ctx.database_session.commit()
+
 
 class Discount(Base):
     """

src/submissions/backend/db/models/submissions.py

@@ -853,7 +853,6 @@ class WastewaterSample(BasicSample):
             output_dict["submitter_id"] = output_dict['ww_full_sample_id']
         return output_dict
 
-
 class BacterialCultureSample(BasicSample):
     """
     base of bacterial culture sample