M3D-Cap downloading issue

[ruida]

Hi,

I use git clone https://huggingface.co/datasets/GoodBaiBai88/M3D-Cap to get the M3D-Cap data. The following message shows the downloaded files issue.

Those zip files reflect internal errors.

Cloning into 'M3D-Cap'... remote: Enumerating objects: 6616, done. remote: Counting objects: 100% (6616/6616), done. remote: Compressing objects: 100% (6483/6483), done. remote: Total 6616 (delta 121), reused 6616 (delta 121), pack-reused 0 (from 0) Receiving objects: 100% (6616/6616), 991.60 KiB | 7.03 MiB/s, done. Resolving deltas: 100% (121/121), done. Updating files: 100% (6215/6215), done. Filtering content: 100% (6188/6188), 204.65 GiB | 6.68 MiB/s, done. Encountered 83 file(s) that may not have been copied correctly on Windows: M3D_Cap/ct_quizze/ct_quizze_03.zip M3D_Cap/ct_case/ct_case_06.zip M3D_Cap/ct_case/ct_case_03.zip M3D_Cap/ct_case/ct_case_02.zip M3D_Cap/ct_case/ct_case_01.zip M3D_Cap/ct_case/ct_case_05.zip M3D_Cap/ct_case/ct_case_00.zip M3D_Cap/ct_case/ct_case_04.zip M3D_Cap/ct_quizze/ct_quizze_01.zip M3D_Cap/ct_quizze/ct_quizze_00.zip M3D_Cap/ct_case/ct_case_10.zip M3D_Cap/ct_quizze/ct_quizze_02.zip M3D_Cap/ct_case/ct_case_15.zip M3D_Cap/ct_quizze/ct_quizze_27.zip M3D_Cap/ct_case/ct_case_13.zip M3D_Cap/ct_case/ct_case_07.zip M3D_Cap/ct_case/ct_case_11.zip M3D_Cap/ct_case/ct_case_16.zip M3D_Cap/ct_quizze/ct_quizze_04.zip M3D_Cap/ct_case/ct_case_12.zip M3D_Cap/ct_case/ct_case_17.zip M3D_Cap/ct_case/ct_case_19.zip M3D_Cap/ct_case/ct_case_18.zip M3D_Cap/ct_case/ct_case_20.zip M3D_Cap/ct_case/ct_case_24.zip M3D_Cap/ct_case/ct_case_21.zip M3D_Cap/ct_case/ct_case_14.zip M3D_Cap/ct_case/ct_case_58.zip M3D_Cap/ct_quizze/ct_quizze_12.zip M3D_Cap/ct_quizze/ct_quizze_26.zip M3D_Cap/ct_case/ct_case_23.zip M3D_Cap/ct_case/ct_case_09.zip M3D_Cap/ct_case/ct_case_08.zip M3D_Cap/ct_case/ct_case_22.zip M3D_Cap/ct_quizze/ct_quizze_10.zip M3D_Cap/ct_quizze/ct_quizze_11.zip M3D_Cap/ct_case/ct_case_28.zip M3D_Cap/ct_quizze/ct_quizze_13.zip M3D_Cap/ct_quizze/ct_quizze_19.zip M3D_Cap/ct_quizze/ct_quizze_08.zip M3D_Cap/ct_quizze/ct_quizze_05.zip M3D_Cap/ct_case/ct_case_61.zip M3D_Cap/ct_case/ct_case_27.zip M3D_Cap/ct_quizze/ct_quizze_17.zip M3D_Cap/ct_quizze/ct_quizze_15.zip M3D_Cap/ct_quizze/ct_quizze_09.zip M3D_Cap/ct_case/ct_case_30.zip M3D_Cap/ct_case/ct_case_26.zip M3D_Cap/ct_quizze/ct_quizze_14.zip M3D_Cap/ct_quizze/ct_quizze_16.zip M3D_Cap/ct_case/ct_case_32.zip M3D_Cap/ct_case/ct_case_25.zip M3D_Cap/ct_case/ct_case_29.zip M3D_Cap/ct_case/ct_case_31.zip M3D_Cap/ct_quizze/ct_quizze_28.zip M3D_Cap/ct_case/ct_case_34.zip M3D_Cap/ct_case/ct_case_33.zip M3D_Cap/ct_case/ct_case_36.zip M3D_Cap/ct_quizze/ct_quizze_18.zip M3D_Cap/ct_quizze/ct_quizze_07.zip M3D_Cap/ct_case/ct_case_42.zip M3D_Cap/ct_case/ct_case_38.zip M3D_Cap/ct_case/ct_case_39.zip M3D_Cap/ct_quizze/ct_quizze_22.zip M3D_Cap/ct_case/ct_case_59.zip M3D_Cap/ct_quizze/ct_quizze_20.zip M3D_Cap/ct_case/ct_case_37.zip M3D_Cap/ct_case/ct_case_40.zip M3D_Cap/ct_quizze/ct_quizze_21.zip M3D_Cap/ct_quizze/ct_quizze_23.zip M3D_Cap/ct_case/ct_case_35.zip M3D_Cap/ct_quizze/ct_quizze_35.zip M3D_Cap/ct_quizze/ct_quizze_06.zip M3D_Cap/ct_case/ct_case_41.zip M3D_Cap/ct_quizze/ct_quizze_24.zip M3D_Cap/ct_quizze/ct_quizze_25.zip M3D_Cap/ct_case/ct_case_43.zip M3D_Cap/ct_quizze/ct_quizze_30.zip M3D_Cap/ct_case/ct_case_45.zip M3D_Cap/ct_quizze/ct_quizze_43.zip M3D_Cap/ct_quizze/ct_quizze_36.zip M3D_Cap/ct_quizze/ct_quizze_41.zip test_data.zip

See: git lfs help smudge for more details.

[ruida]

python m3d_cap_data_prepare.py /conda/envs/m3d/lib/python3.9/site-packages/monai/utils/deprecate_utils.py:321: FutureWarning: monai.transforms.croppad.array CropForeground.init:allow_smaller: Current default value of argument allow_smaller=True has been deprecated since version 1.2. It will be changed to allow_smaller=False in version 1.5. warn_deprecated(argname, msg, warning_category) Processing: 0%| | 1/24914 [02:58<1235:29:52, 178.53s/it]This image is error: /M3D/Data/data/M3D-Cap/M3D_Cap/ct_case_unzip/000781/Axial_renal_excretory_phase/71.jpeg Processing: 0%| | 1/24914 [10:10<4226:28:29, 610.74s/it] This image is error: /M3D/Data/data/M3D-Cap/M3D_Cap/ct_case_unzip/001592/Sagittal_bone_window/71.jpeg

[baifanxxx]

Hi,

Thank you for your interest in our work. The same CT scan may have some error image slices since all images are crawled from the website. These error images are not normal PNG or JPEG images on the original website. But do not worry. There are still many available images in the same error CT scan, which renders the 3D CT scan normal.