debug

.github/workflows/main.yml

@@ -18,7 +18,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: [3.10]
+        python-version: ["3.10"]
         os: [ubuntu-latest]
     runs-on: ${{ matrix.os }}
     steps:
@@ -36,7 +36,7 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: [3.10]
+        python-version: ["3.10"]
         os: [ubuntu-latest]
     runs-on: ${{ matrix.os }}
     steps:
@@ -58,7 +58,7 @@ jobs:
   #  strategy:
   #    fail-fast: false
   #    matrix:
-  #      python-version: [3.10]
+  #      python-version: ["3.10"]
   #      os: [macos-latest]
   #  runs-on: ${{ matrix.os }}
   #  steps:
@@ -76,7 +76,7 @@ jobs:
   #  strategy:
   #    fail-fast: false
   #    matrix:
-  #      python-version: [3.10]
+  #      python-version: ["3.10"]
   #      os: [windows-latest]
   #  runs-on: ${{ matrix.os }}
   #  steps:

scdataloader/data.py

@@ -1,7 +1,4 @@
-import json
 from dataclasses import dataclass, field
-from pathlib import Path
-from typing import List, Optional, Union
 
 import pandas as pd
 from torch.utils.data import Dataset as torchDataset
@@ -200,7 +197,7 @@ def use_prior_network(
             )
         self.add_prior_network(net)
 
-    def add_prior_network(self, prior_network: pd.DataFrame):
+    def add_prior_network(self, prior_network: pd.DataFrame, init_len):
         # validate the network dataframe
         required_columns: list[str] = ["target", "regulators"]
         optional_columns: list[str] = ["type", "weight"]

scdataloader/mapped.py

@@ -1,7 +1,7 @@
 from collections import Counter
 from functools import reduce
 from os import PathLike
-from typing import List, Literal, Optional, Union, Iterable
+from typing import List, Literal, Optional, Union
 
 import numpy as np
 import pandas as pd
@@ -15,13 +15,6 @@
     registry,
 )
 from lamin_utils import logger
-from lnschema_core.models import (
-    Data,
-    Run,
-    __repr__,
-)
-from lamindb.dev._settings import settings
-from lamindb.dev._run_context import run_context
 from lamindb.dev._data import _track_run_input
 
 

scdataloader/preprocess.py

@@ -1,4 +1,4 @@
-from typing import Dict, Optional, Union, Callable
+from typing import Optional, Union, Callable
 from django.db import IntegrityError
 
 import numpy as np