3 files changed, 9 insertions, 8 deletions
diff --git a/uploader/phenotypes/misc.py b/uploader/phenotypes/misc.py
index cbe3b7f..1924c07 100644
--- a/uploader/phenotypes/misc.py
+++ b/uploader/phenotypes/misc.py
@@ -8,7 +8,7 @@ def phenotypes_data_differences(
         filedata: tuple[dict, ...], dbdata: tuple[dict, ...]
 ) -> tuple[dict, ...]:
     """Compute differences between file data and db data"""
-    diff = tuple()
+    diff: tuple[dict, ...] = tuple()
     for filerow, dbrow in zip(
             sorted(filedata, key=lambda item: (item["phenotype_id"], item["xref_id"])),
             sorted(dbdata, key=lambda item: (item["PhenotypeId"], item["xref_id"]))):
diff --git a/uploader/phenotypes/models.py b/uploader/phenotypes/models.py
index e962e62..7c051d7 100644
--- a/uploader/phenotypes/models.py
+++ b/uploader/phenotypes/models.py
@@ -255,9 +255,9 @@ def phenotypes_vector_data(# pylint: disable=[too-many-arguments, too-many-posit
         xref_ids: tuple[int, ...] = tuple(),
         offset: int = 0,
         limit: Optional[int] = None
-) -> dict[tuple[int, int, int]: dict[str, Union[int,float]]]:
+) -> dict[tuple[int, int, int], dict[str, Union[int,float]]]:
     """Retrieve the vector data values for traits in the database."""
-    _params = (species_id, population_id)
+    _params: tuple[int, ...] = (species_id, population_id)
     _query = ("SELECT "
               "Species.Id AS SpeciesId, iset.Id AS InbredSetId, "
               "pxr.Id AS xref_id, pdata.*, Strain.Id AS StrainId, "
@@ -381,7 +381,7 @@ def create_new_phenotypes(# pylint: disable=[too-many-locals]
         phenotypes: Iterable[dict]
 ) -> tuple[dict, ...]:
     """Add entirely new phenotypes to the database. WARNING: Not thread-safe."""
-    _phenos = tuple()
+    _phenos: tuple[dict, ...] = tuple()
     with conn.cursor(cursorclass=DictCursor) as cursor:
         def make_next_id(idcol, table):
             cursor.execute(f"SELECT MAX({idcol}) AS last_id FROM {table}")
@@ -430,9 +430,10 @@ def create_new_phenotypes(# pylint: disable=[too-many-locals]
             if len(batch) == 0:
                 break
 
-            params, abbrevs = reduce(__build_params_and_prepubabbrevs__,
-                                     batch,
-                                     (tuple(), tuple()))
+            params, abbrevs = reduce(#type: ignore[var-annotated]
+                __build_params_and_prepubabbrevs__,
+                batch,
+                (tuple(), tuple()))
             # Check for uniqueness for all "Pre_publication_description" values
             abbrevs_paramsstr = ", ".join(["%s"] * len(abbrevs))
             _query = ("SELECT PublishXRef.PhenotypeId, Phenotype.* "
diff --git a/uploader/phenotypes/views.py b/uploader/phenotypes/views.py
index 9df7d81..42f2e34 100644
--- a/uploader/phenotypes/views.py
+++ b/uploader/phenotypes/views.py
@@ -805,7 +805,7 @@ def update_phenotype_data(conn, data: dict):
             }
         })
 
-    values, serrs, counts = tuple(
+    values, serrs, counts = tuple(# type: ignore[var-annotated]
         tuple({
             "data_id": row[0].split("::")[0],
             "strain_id": row[0].split("::")[1],