Removed unused imports

NiChart_DLMUSE/__main__.py

@@ -6,20 +6,9 @@
 """
 
 import argparse
-import os
-import shutil
-import threading
 
 from .dlmuse_pipeline import run_pipeline
 
-from .utils import (
-    collect_T1,
-    merge_bids_output_data,
-    merge_output_data,
-    remove_subfolders,
-    split_data,
-)
-
 # VERSION = pkg_resources.require("NiChart_DLMUSE")[0].version
 VERSION = "1.0.7"
 
@@ -160,8 +149,9 @@ def main() -> None:
         dlmuse_extra_args,
         clear_cache,
         bids,
-        cores
+        cores,
     )
 
+
 if __name__ == "__main__":
     main()

NiChart_DLMUSE/dlmuse_pipeline.py

@@ -1,8 +1,8 @@
 import logging
 import os
-from typing import Any
 import shutil
 import threading
+from typing import Any
 
 import pkg_resources  # type: ignore
 
@@ -12,8 +12,8 @@
 from .ReorientImage import apply_reorient_img, apply_reorient_to_init
 from .SegmentImage import run_dlicv, run_dlmuse
 from .utils import (
-    make_img_list,
     collect_T1,
+    make_img_list,
     merge_bids_output_data,
     merge_output_data,
     remove_subfolders,
@@ -44,6 +44,7 @@
 logger = logging.getLogger(__name__)
 logging.basicConfig(filename="pipeline.log", encoding="utf-8", level=logging.DEBUG)
 
+
 def run_pipeline(
     in_dir: str,
     out_dir: str,
@@ -52,8 +53,8 @@ def run_pipeline(
     dlmuse_extra_args: str,
     clear_cache: bool,
     bids: bool,
-    cores: str
-):
+    cores: str,
+) -> None:
     """
     NiChart pipeline
 
@@ -157,6 +158,7 @@ def run_pipeline(
         else:  # No core parallelization
             run_thread(in_dir, out_dir, device, dlmuse_extra_args, dlicv_extra_args)
 
+
 def run_thread(
     in_data: str,
     out_dir: str,

tests/test_utils.py

@@ -9,7 +9,6 @@
     remove_common_suffix,
     remove_subfolders,
     split_data,
-    get_bids_prefix
 )
 
 
@@ -73,6 +72,7 @@ def testing_get_bids_prefix() -> None:
     temp_folder = "test"
     assert get_bids_prefix(temp_folder, True) == "test"
 
+
 def testing_collect_T1() -> None:
     os.system("mkdir test_collect_T1")