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Description
Describe the bug
Execute this script,
import numpy as np
import torch
from monai.data.dataloader import DataLoader
from monai.data.grid_dataset import GridPatchDataset, PatchIter
device = torch.device('cuda:0' if torch.cuda.is_available() else 'cpu')
print('Using device:', device)
images = [torch.arange(16, dtype=float, device=device).reshape(1, 4, 4), torch.arange(16, dtype=float, device=device).reshape(1, 4, 4)]
patch_iter = PatchIter(patch_size=(2, 2), start_pos=(0, 0))
ds = GridPatchDataset(data=images, patch_iter=patch_iter)
for item in DataLoader(ds, batch_size=2, shuffle=False, num_workers=0):
np.testing.assert_equal(tuple(item[0].shape), (2, 1, 2, 2))
To Reproduce
see above
Expected behavior
no exception
Environment
================================
Printing MONAI config...
================================
MONAI version: 1.2.0rc1+22.g8eceabf2
Numpy version: 1.23.5
Pytorch version: 2.0.0+cu117
MONAI flags: HAS_EXT = False, USE_COMPILED = False, USE_META_DICT = False
MONAI rev id: 8eceabf281ab31ea4bda0ab8a6d2c8da06027e82
MONAI __file__: /mnt/d/codes/MONAI/monai/__init__.py
Optional dependencies:
Pytorch Ignite version: 0.4.11
ITK version: 5.3.0
Nibabel version: 5.0.1
scikit-image version: 0.20.0
Pillow version: 9.4.0
Tensorboard version: 2.12.0
gdown version: 4.6.4
TorchVision version: 0.15.1+cu117
tqdm version: 4.65.0
lmdb version: 1.4.0
psutil version: 5.9.4
pandas version: 1.5.3
einops version: 0.6.0
transformers version: 4.21.3
mlflow version: 2.2.2
pynrrd version: 1.0.0
For details about installing the optional dependencies, please visit:
https://docs.monai.io/en/latest/installation.html#installing-the-recommended-dependencies
================================
Printing system config...
================================
System: Linux
Linux version: Ubuntu 22.04.2 LTS
Platform: Linux-5.10.102.1-microsoft-standard-WSL2-x86_64-with-glibc2.35
Processor: x86_64
Machine: x86_64
Python version: 3.10.6
Process name: python
Command: ['python', '-c', 'import monai; monai.config.print_debug_info()']
Open files: []
Num physical CPUs: 6
Num logical CPUs: 12
Num usable CPUs: 12
CPU usage (%): [13.5, 2.7, 3.2, 3.7, 1.0, 0.9, 1.7, 1.6, 0.7, 0.5, 0.6, 0.7]
CPU freq. (MHz): 3600
Load avg. in last 1, 5, 15 mins (%): [8.4, 3.8, 2.2]
Disk usage (%): 68.9
Avg. sensor temp. (Celsius): UNKNOWN for given OS
Total physical memory (GB): 25.0
Available memory (GB): 24.2
Used memory (GB): 0.5
================================
Printing GPU config...
================================
Num GPUs: 1
Has CUDA: True
CUDA version: 11.7
cuDNN enabled: True
cuDNN version: 8500
Current device: 0
Library compiled for CUDA architectures: ['sm_37', 'sm_50', 'sm_60', 'sm_70', 'sm_75', 'sm_80', 'sm_86']
GPU 0 Name: NVIDIA GeForce GTX 1660
GPU 0 Is integrated: False
GPU 0 Is multi GPU board: False
GPU 0 Multi processor count: 22
GPU 0 Total memory (GB): 6.0
GPU 0 CUDA capability (maj.min): 7.5
Additional context
In an application scenario, we might need to get 2d slices from 3d (https://github.com/Project-MONAI/tutorials/blob/main/modules/2d_slices_from_3d_training.ipynb). When we move the data to GPU before GridPatchDataset for acceleration (https://github.com/Project-MONAI/tutorials/blob/main/acceleration/fast_training_tutorial.ipynb), the function iter_patch of PatchIter cannot handle GPU tensor correctly.
My proposed PR will be linked later.
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