diff --git a/scripts/datasets/check_pannuke.py b/scripts/datasets/check_pannuke.py new file mode 100644 index 00000000..da57c947 --- /dev/null +++ b/scripts/datasets/check_pannuke.py @@ -0,0 +1,20 @@ +from torch_em.util.debug import check_loader +from torch_em.data.datasets import get_pannuke_loader + + +PANNUKE_ROOT = "/scratch/usr/nimanwai/data/pannuke/" + + +def check_pannuke(): + loader = get_pannuke_loader( + path=PANNUKE_ROOT, + batch_size=2, + patch_shape=(1, 512, 512), + ndim=2, + download=True + ) + check_loader(loader, 8, instance_labels=True, plt=False, rgb=True) + + +if __name__ == "__main__": + check_pannuke() diff --git a/torch_em/data/datasets/pannuke.py b/torch_em/data/datasets/pannuke.py index 1eb5e216..2a2a9cb9 100644 --- a/torch_em/data/datasets/pannuke.py +++ b/torch_em/data/datasets/pannuke.py @@ -6,7 +6,6 @@ from glob import glob import torch_em -from torch_em.util.debug import check_loader from torch_em.data.datasets import util @@ -197,18 +196,3 @@ def get_pannuke_loader( custom_label_choice=custom_label_choice, **dataset_kwargs) return torch_em.get_data_loader(ds, batch_size=batch_size, **loader_kwargs) - - -def main(): - train_loader = get_pannuke_loader( - path="./pannuke/", - batch_size=2, - patch_shape=(1, 256, 256), - ndim=2, - download=True - ) - check_loader(train_loader, 8, instance_labels=True, plt=False, rgb=True) - - -if __name__ == "__main__": - main()