Ignoring .DS_Store files (mac issue) #125
Description
Hello, I am using BiaPy via CLI on macOS to do Image Classification. If "mac droppings" i.e. .DS_Store files are present in either the training of testing folders/subfolders, the routine crashes:
[08:41:52.063669] ######################
[08:41:52.063677] # LOAD TEST DATA #
[08:41:52.063680] ######################
[08:41:52.063702] ### LOAD ###
[08:41:52.063890] Found 1 classes
Traceback (most recent call last):
File "/Users/redacted/miniconda3/envs/BiaPy_dev/bin/biapy", line 8, in <module>
sys.exit(main())
File "/Users/redacted/BiaPy/biapy/__init__.py", line 68, in main
_biapy.run_job()
File "/Users/redacted/BiaPy/biapy/_biapy.py", line 1082, in run_job
self.test()
File "/Users/redacted/BiaPy/biapy/_biapy.py", line 253, in test
self.workflow.test()
File "/Users/redacted/miniconda3/envs/BiaPy_dev/lib/python3.10/site-packages/torch/utils/_contextlib.py", line 116, in decorate_context
return func(*args, **kwargs)
File "/Users/redacted/BiaPy/biapy/engine/base_workflow.py", line 1098, in test
self.load_test_data()
File "/Users/redacted/BiaPy/biapy/engine/classification.py", line 274, in load_test_data
) = load_and_prepare_cls_test_data(
File "/Users/redacted/BiaPy/biapy/data/data_manipulation.py", line 1105, in load_and_prepare_cls_test_data
X_test = samples_from_class_list(
File "/Users/redacted/BiaPy/biapy/data/data_manipulation.py", line 2207, in samples_from_class_list
img, _ = load_img_data(img_path, is_3d=is_3d)
File "/Users/redacted/BiaPy/biapy/data/data_manipulation.py", line 3175, in load_img_data
data = read_img_as_ndarray(path, is_3d=is_3d)
File "/Users/redacted/BiaPy/biapy/data/data_manipulation.py", line 3212, in read_img_as_ndarray
img = imread(path)
File "/Users/redacted/BiaPy/biapy/data/data_manipulation.py", line 3241, in imread
return imageio.imread(path)
File "/Users/redacted/miniconda3/envs/BiaPy_dev/lib/python3.10/site-packages/imageio/__init__.py", line 97, in imread
return imread_v2(uri, format=format, **kwargs)
File "/Users/redacted/miniconda3/envs/BiaPy_dev/lib/python3.10/site-packages/imageio/v2.py", line 359, in imread
with imopen(uri, "ri", **imopen_args) as file:
File "/Users/redacted/miniconda3/envs/BiaPy_dev/lib/python3.10/site-packages/imageio/core/imopen.py", line 281, in imopen
raise err_type(err_msg)
ValueError: Could not find a backend to open `/Users/redacted/Desktop/biapy_stv/2d/test/all/.DS_Store`` with iomode `ri`.
I can resolve by doing find . -name ".DS_Store" -delete in the training and test folders.
Perhaps BiaPy could skip hidden files? Or maybe check for their presence at the start of the routine as the crash occurs when they're encountered, so if only present in test folder, the training proceeds OK before the crash.