Clean up comments

genotype_api/database/crud/read.py

@@ -81,7 +81,6 @@ async def get_analyses_by_type_between_dates(
 
         filtered_query = filtered_query.options(selectinload(Analysis.genotypes))
 
-        # Execute the query asynchronously
         result = await self.session.execute(filtered_query)
         return result.scalars().all()
 
@@ -97,17 +96,14 @@ async def get_analysis_by_type_and_sample_id(
             type=analysis_type,
         )
 
-        # Add selectinload to eagerly load genotypes
         filtered_query = filtered_query.options(selectinload(Analysis.genotypes))
 
         result = await self.session.execute(filtered_query)
         return result.scalars().first()
 
     async def get_plate_by_id(self, plate_id: int) -> Plate:
         plates: Query = self._get_query(Plate).options(
-            selectinload(Plate.analyses).selectinload(
-                Analysis.sample
-            )  # Eager loading of analyses and samples
+            selectinload(Plate.analyses).selectinload(Analysis.sample)
         )
         filter_functions = [PlateFilter.BY_ID]
         filtered_query = apply_plate_filter(
@@ -206,23 +202,14 @@ def _get_samples(query: Query, sample_id: str) -> Query:
         return query.filter(Sample.id.contains(sample_id))
 
     async def get_sample_by_id(self, sample_id: str) -> Sample:
-        # Start by getting a base query for Sample
         samples: Query = self._get_query(Sample)
-
-        # Define the filter functions for filtering by Sample ID
         filter_functions = [SampleFilter.BY_ID]
-
-        # Apply the filters using apply_sample_filter
         filtered_query = apply_sample_filter(
             samples=samples, filter_functions=filter_functions, sample_id=sample_id
         )
-
-        # Ensure we load related analyses and genotypes using selectinload to avoid lazy loading
         filtered_query = filtered_query.options(
             selectinload(Sample.analyses).selectinload(Analysis.genotypes)
         )
-
-        # Execute the query asynchronously
         result = await self.session.execute(filtered_query)
         return result.scalars().first()
 

genotype_api/database/store.py

@@ -45,6 +45,6 @@ async def get_store() -> AsyncGenerator[Store, None]:
     """Return a Store instance."""
     store = await Store.create()
     try:
-        yield store  # Yield the store for the duration of the request
+        yield store
     finally:
         await store.session.close()

genotype_api/security.py

@@ -75,7 +75,6 @@ async def get_active_user(
             detail="Invalid or expired token",
         )
 
-    # Now check for the presence of "payload" and "email" safely
     payload = token_info.get("payload")
     if not payload or "email" not in payload:
         raise HTTPException(

genotype_api/services/endpoint_services/sample_service.py

@@ -65,13 +65,11 @@ def _get_sample_response(self, sample: Sample) -> SampleResponse:
         )
 
     async def get_sample(self, sample_id: str) -> SampleResponse:
-        # Use the ReadHandler to fetch the sample
         sample: Sample = await self.store.get_sample_by_id(sample_id)
 
         if not sample:
             raise SampleNotFoundError
 
-        # If sample has two analyses and no status, refresh its status
         if len(sample.analyses) == 2 and not sample.status:
             sample: Sample = await self.store.refresh_sample_status(sample=sample)