Fix i/o unit tests, miss the dowloading

qim3d/io/_convert.py

@@ -8,8 +8,8 @@ import tifffile as tiff
 import zarr
 from tqdm import tqdm
 
-from qim3d.utils._misc import stringify_path
-from qim3d.io._saving import save
+from qim3d.utils import stringify_path
+from qim3d.io import save
 
 
 class Convert:

qim3d/io/_downloader.py

@@ -8,7 +8,7 @@ from tqdm import tqdm
 from pathlib import Path
 
 from qim3d.io import load
-from qim3d.utils._logger import log
+from qim3d.utils import log
 import outputformat as ouf
 
 

qim3d/io/_loading.py

@@ -23,10 +23,10 @@ from dask import delayed
 from PIL import Image, UnidentifiedImageError
 
 import qim3d
-from qim3d.utils._logger import log
-from qim3d.utils._misc import get_file_size, sizeof, stringify_path
-from qim3d.utils._system import Memory
-from qim3d.utils._progress_bar import FileLoadingProgressBar
+from qim3d.utils import log
+from qim3d.utils import get_file_size, sizeof, stringify_path
+from qim3d.utils import Memory
+from qim3d.utils import FileLoadingProgressBar
 import trimesh
 
 dask.config.set(scheduler="processes") 
@@ -716,7 +716,7 @@ class DataLoader:
         # Fails
         else:
             # Find the closest matching path to warn the user
-            similar_paths = qim3d.utils.misc.find_similar_paths(path)
+            similar_paths = qim3d.utils.find_similar_paths(path)
 
             if similar_paths:
                 suggestion = similar_paths[0]  # Get the closest match

qim3d/io/_ome_zarr.py

@@ -31,9 +31,9 @@ from skimage.transform import (
     resize,
 )
 
-from qim3d.utils._logger import log
-from qim3d.utils._progress_bar import OmeZarrExportProgressBar
-from qim3d.utils._ome_zarr import get_n_chunks
+from qim3d.utils import log
+from qim3d.utils import OmeZarrExportProgressBar
+from qim3d.utils import get_n_chunks
 
 
 ListOfArrayLike = Union[List[da.Array], List[np.ndarray]]

qim3d/io/_saving.py

@@ -37,8 +37,8 @@ from pydicom.dataset import FileDataset, FileMetaDataset
 from pydicom.uid import UID
 import trimesh
 
-from qim3d.utils._logger import log
-from qim3d.utils._misc import sizeof, stringify_path
+from qim3d.utils import log
+from qim3d.utils import sizeof, stringify_path
 
 
 class DataSaver:

qim3d/io/_sync.py

@@ -2,7 +2,7 @@
 import os
 import subprocess
 import outputformat as ouf
-from qim3d.utils._logger import log
+from qim3d.utils import log
 from pathlib import Path
 
 

qim3d/utils/__init__.py

 from . import _doi
 from ._system import Memory
 
+from ._logger import log
+
 from ._misc import (
     get_local_ip,
     port_from_str,
@@ -11,6 +13,15 @@ from ._misc import (
     get_css,
     downscale_img,
     scale_to_float16,
+    stringify_path,
+    find_similar_paths
 )
 
 from ._server import start_http_server
+
+from ._progress_bar import (
+    FileLoadingProgressBar,
+    OmeZarrExportProgressBar,
+)
+
+from ._ome_zarr import get_chunk_size
\ No newline at end of file

qim3d/utils/_misc.py

@@ -153,7 +153,7 @@ def get_file_size(file_path: str) -> int:
     try:
         file_size = os.path.getsize(file_path)
     except FileNotFoundError:
-        similar_paths = qim3d.utils.misc.find_similar_paths(file_path)
+        similar_paths = qim3d.utils.find_similar_paths(file_path)
 
         if similar_paths:
             suggestion = similar_paths[0]  # Get the closest match