ruff fixes

Author: ravwojdyla

bio2zarr/vcf.py

@@ -12,7 +12,7 @@
 import shutil
 import sys
 import tempfile
-from typing import Any, List
+from typing import Any
 
 import cyvcf2
 import humanfriendly
@@ -746,9 +746,9 @@ class IcfFieldWriter:
     transformer: VcfValueTransformer
     compressor: Any
     max_buffered_bytes: int
-    buff: List[Any] = dataclasses.field(default_factory=list)
+    buff: list[Any] = dataclasses.field(default_factory=list)
     buffered_bytes: int = 0
-    chunk_index: List[int] = dataclasses.field(default_factory=lambda: [0])
+    chunk_index: list[int] = dataclasses.field(default_factory=lambda: [0])
     num_records: int = 0
 
     def append(self, val):

bio2zarr/vcf_utils.py

@@ -3,8 +3,9 @@
 import os
 import pathlib
 import struct
+from collections.abc import Sequence
 from dataclasses import dataclass
-from typing import IO, Any, Dict, Optional, Sequence, Union
+from typing import IO, Any, Optional, Union
 
 import cyvcf2
 import humanfriendly
@@ -183,7 +184,7 @@ def get_first_locus_in_bin(csi: CSIIndex, bin: int) -> int:
 
 
 def read_csi(
-    file: PathType, storage_options: Optional[Dict[str, str]] = None
+    file: PathType, storage_options: Optional[dict[str, str]] = None
 ) -> CSIIndex:
     """Parse a CSI file into a `CSIIndex` object.
 
@@ -297,7 +298,7 @@ def offsets(self) -> Any:
 
 
 def read_tabix(
-    file: PathType, storage_options: Optional[Dict[str, str]] = None
+    file: PathType, storage_options: Optional[dict[str, str]] = None
 ) -> TabixIndex:
     """Parse a tabix file into a `TabixIndex` object.