Question

我正在尝试做一个项目。不幸的是，我可以读取dicom文件，但是当我尝试访问pixel_array属性并将其绘制时，会引发错误。

def readDcm(self):
        #path of the decomFolder
        print("Path to the DICOM directory is: ",self.dcmPath)
        PathDicom = self.dcmPath
        lstFilesDCM = []  # creating an empty list
        for dirName, subdirList, fileList in os.walk(PathDicom):
            for filename in fileList:
                if ".dcm" in filename.lower():  # checking whether the file's DICOM
                    lstFilesDCM.append(os.path.join(dirName,filename))


        print(len(lstFilesDCM))

        for filename in lstFilesDCM:
            currentDcm = pydicom.read_file(lstFilesDCM[0])
            dcm_data = currentDcm.PixelData
            pixeldata= currentDcm.pixel_array

错误是：

File "C:\Anaconda3\lib\site-packages\pydicom\pixel_data_handlers\pillow_handler.py", line 199, in get_pixeldata
    raise NotImplementedError(e.strerror)

NotImplementedError: None

任何建议都会很好。预先谢谢你。

解决方案：

def load_scan(path):
    slices = [dicom.read_file(path + '/' + s) for s in os.listdir(path)]
    slices.sort(key = lambda x: float(x.ImagePositionPatient[2]))
    pos1 = slices[int(len(slices)/2)].ImagePositionPatient[2]
    pos2 = slices[(int(len(slices)/2)) + 1].ImagePositionPatient[2]
    diff = pos2 - pos1
    if diff > 0:
        slices = np.flipud(slices)
    try:
        slice_thickness = np.abs(slices[0].ImagePositionPatient[2] - slices[1].ImagePositionPatient[2])
    except:
        slice_thickness = np.abs(slices[0].SliceLocation - slices[1].SliceLocation)

    for s in slices:
        s.SliceThickness = slice_thickness
    return slices

Answer 1

没有任何进一步的上下文，很难断言任何事情。但是，当我查看收集潜在DICOM文件的方式时，您可能正在构建不存在的路径（看起来，当您将路径部分重新加入时，您跳过了一个层次结构级别；您可能需要检查所构建的路径是否实际指向一个使用os.path.exists（）的现有文件。

您可能要更改迭代部分：

    for dirName, subdirList, fileList in os.walk(PathDicom):
        for filename in fileList:
            if ".dcm" in filename.lower():  # checking whether the file's DICOM
                lstFilesDCM.append(os.path.join(dirName,filename)) # <-you cut one potential hierarchy level

类似：

dicom_files = []
for d, dirs, files in os.walk('./data/'):
    for x in files:
        if x.endswith(".png"):
            dicom_path = os.path.join(d, x)
            if os.path.exists(dicom_path):
                dicom_files.append(dicom_path)

Answer 2

我通过使用ImagePositionPatient属性按照递增的轴对dicom文件进行了排序。解决了我的问题。我能够访问pixel_array属性并进行绘图。该代码已添加到原始问题。我也在下面添加它。

def load_scan(path):
    slices = [dicom.read_file(path + '/' + s) for s in os.listdir(path)]
    slices.sort(key = lambda x: float(x.ImagePositionPatient[2]))
    pos1 = slices[int(len(slices)/2)].ImagePositionPatient[2]
    pos2 = slices[(int(len(slices)/2)) + 1].ImagePositionPatient[2]
    diff = pos2 - pos1
    if diff > 0:
        slices = np.flipud(slices)
    try:
        slice_thickness = np.abs(slices[0].ImagePositionPatient[2] - slices[1].ImagePositionPatient[2])
    except:
        slice_thickness = np.abs(slices[0].SliceLocation - slices[1].SliceLocation)

    for s in slices:
        s.SliceThickness = slice_thickness
    return slices

代码源：https://www.programcreek.com/python/example/97517/dicom.read_file

无法访问pydicom的pixel_array属性

2 个答案: