def crop(task_string, override=False, num_threads=8):
cropped_out_dir = join(cropped_output_dir, task_string)
maybe_mkdir_p(cropped_out_dir)
if override and isdir(cropped_out_dir):
shutil.rmtree(cropped_out_dir)
maybe_mkdir_p(cropped_out_dir)
splitted_4d_output_dir_task = join(splitted_4d_output_dir, task_string)
lists, _ = create_lists_from_splitted_dataset(splitted_4d_output_dir_task)
imgcrop = ImageCropper(num_threads, cropped_out_dir)
imgcrop.run_cropping(lists, overwrite_existing=override)
shutil.copy(join(splitted_4d_output_dir, task_string, "dataset.json"), cropped_out_dir)
def crop(task_string, override=False, num_threads=default_num_threads):
cropped_out_dir = join(nnUNet_cropped_data, task_string)
os.makedirs(cropped_out_dir, exist_ok=True)
if override and isdir(cropped_out_dir):
shutil.rmtree(cropped_out_dir)
os.makedirs(cropped_out_dir, exist_ok=True)
splitted_4d_output_dir_task = join(nnUNet_raw_data, task_string)
lists, _ = create_lists_from_splitted_dataset(splitted_4d_output_dir_task)
imgcrop = ImageCropper(num_threads, cropped_out_dir)
imgcrop.run_cropping(lists, overwrite_existing=override)
shutil.copy(join(nnUNet_raw_data, task_string, "dataset.json"), cropped_out_dir)
def crop(task_string, override=False, num_threads=default_num_threads):
cropped_out_dir = join(nnUNet_cropped_data, task_string)
maybe_mkdir_p(cropped_out_dir)
if override and isdir(cropped_out_dir):
shutil.rmtree(cropped_out_dir)
maybe_mkdir_p(cropped_out_dir)
splitted_4d_output_dir_task = join(nnUNet_raw_data, task_string)
lists, _ = create_lists_from_splitted_dataset(splitted_4d_output_dir_task)
# from nnunet.preprocessing.cropping import ImageCropper
imgcrop = ImageCropper(num_threads, cropped_out_dir)
# run_cropping
imgcrop.run_cropping(lists, overwrite_existing=override)
shutil.copy(join(nnUNet_raw_data, task_string, "dataset.json"),
cropped_out_dir)