dicom格式转成nii.gz文件

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已于 2022-06-18 23:47:13 修改

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分类专栏：计算机视觉与深度学习文章标签： python 图像处理

于 2022-06-18 23:45:38 首次发布

本文链接：https://blog.csdn.net/qq_15054345/article/details/125353272

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# -*-coding:utf-8-*-
import glob
import os
import shutil
from tqdm import tqdm

import monai
from monai.transforms import LoadImage, Compose, LoadImaged, Orientationd, EnsureChannelFirstd, SaveImage, AddChanneld, \
    AddChannel

data_dir = r'D:\Caiyimin\Dicom_data\Oral_image_root\KaWaAndSenTianOrg'
nii_save_path = r'D:\Caiyimin\Dicom_data\Oral_image_root\NiiFormat'


def has_dcm_files(path):
    for _, _, files in os.walk(path):
        if len(files) == 0:
            return False
        else:
            return True


transform = Compose(
    LoadImaged(keys=['image'], meta_keys='info'),
    Orientationd(keys=["image"], axcodes='LPS'),
)


def convert2nii():
    for root, dirs, _ in os.walk(data_dir):
        for (i, dir) in enumerate(tqdm(dirs)):
            abs_dir = os.path.join(root, dir)
            key = {"image": abs_dir}
            info = transform(key)
            img = info['image']
            img = AddChannel()(img)
            saver = SaveImage(output_dir=nii_save_path, mode='bilinear', output_postfix='')
            meta_data = info['info']
            saver(img, meta_data=meta_data)

            # 将保存文件移到上一个目录中
            nii_files = glob.glob(os.path.join(nii_save_path, dir, '*.nii.gz'))
            for file in nii_files:
                file_name = file.split('\\')[-1]
                shutil.move(file, os.path.join(nii_save_path, file_name))
                shutil.rmtree(os.path.join(nii_save_path, dir))


convert2nii()