NotImplementedError: this transfer syntax JPEG 2000 Image Compression, can not be read because Pillow lacks the jpeg 2000 decoder plugin

Question

我正在运行编写代码以在 Python 中可视化和分析 DICOM 图像。当我运行代码为每个切片位置提取 DICOM 像素并显示单个切片时，我收到以下错误：NotImplementedError: this transfer syntax JPEG 2000 Image Compression, can not be read because Pillow lacks the jpeg 2000 decoder plugin 这是我正在关注的教程的 link：Link to the tutorial

我的代码如下：

# set path and load files 
path = 'C:\Users\MyName\Desktop\DICOM\series-00000\'
patient_dicom = load_scan(path)
patient_pixels = get_pixels_hu(patient_dicom)
#sanity check
plt.imshow(patient_pixels[326], cmap=plt.cm.bone)

错误是：

NotImplementedError                       Traceback (most recent call last)
<ipython-input-29-c775fc5d5328> in <module>
      2 path = 'C:\Users\MyName\Desktop\DICOM\series-00000\'
      3 patient_dicom = load_scan(path)
----> 4 patient_pixels = get_pixels_hu(patient_dicom)
      5 #sanity check
      6 plt.imshow(patient_pixels[326], cmap=plt.cm.bone)

<ipython-input-28-1f0488edc728> in get_pixels_hu(scans)
      1 def get_pixels_hu(scans):
----> 2     image = np.stack([s.pixel_array for s in scans])
      3     image = image.astype(np.int16)
      4     # Set outside-of-scan pixels to 0
      5     # The intercept is usually -1024, so air is approximately 0

<ipython-input-28-1f0488edc728> in <listcomp>(.0)
      1 def get_pixels_hu(scans):
----> 2     image = np.stack([s.pixel_array for s in scans])
      3     image = image.astype(np.int16)
      4     # Set outside-of-scan pixels to 0
      5     # The intercept is usually -1024, so air is approximately 0

~\Anaconda3X-Install\lib\site-packages\pydicom\dataset.py in pixel_array(self)
   1613             :class:`numpy.ndarray`.
   1614         """
-> 1615         self.convert_pixel_data()
   1616         return self._pixel_array
   1617 

~\Anaconda3X-Install\lib\site-packages\pydicom\dataset.py in convert_pixel_data(self, handler_name)
   1322             self._convert_pixel_data_using_handler(handler_name)
   1323         else:
-> 1324             self._convert_pixel_data_without_handler()
   1325 
   1326     def _convert_pixel_data_using_handler(self, name):

~\Anaconda3X-Install\lib\site-packages\pydicom\dataset.py in _convert_pixel_data_without_handler(self)
   1432             .format(", ".join([str(hh) for hh in available_handlers]))
   1433         )
-> 1434         raise last_exception
   1435 
   1436     def _do_pixel_data_conversion(self, handler):

~\Anaconda3X-Install\lib\site-packages\pydicom\dataset.py in _convert_pixel_data_without_handler(self)
   1412         for handler in available_handlers:
   1413             try:
-> 1414                 self._do_pixel_data_conversion(handler)
   1415                 return
   1416             except Exception as exc:

~\Anaconda3X-Install\lib\site-packages\pydicom\dataset.py in _do_pixel_data_conversion(self, handler)
   1439         # Use the handler to get a 1D numpy array of the pixel data
   1440         # Will raise an exception if no pixel data element
-> 1441         arr = handler.get_pixeldata(self)
   1442         self._pixel_array = reshape_pixel_array(self, arr)
   1443 

~\Anaconda3X-Install\lib\site-packages\pydicom\pixel_data_handlers\pillow_handler.py in get_pixeldata(ds)
    132                "Pillow lacks the jpeg 2000 decoder plugin"
    133                .format(transfer_syntax.name))
--> 134         raise NotImplementedError(msg)
    135 
    136     if transfer_syntax == pydicom.uid.JPEGExtended and ds.BitsAllocated != 8:

NotImplementedError: this transfer syntax JPEG 2000 Image Compression, can not be read because Pillow lacks the jpeg 2000 decoder plugin

我安装了所有推荐的包，包括 Pillow，我的 Python 版本是 3.7。我通过运行宁以下命令 conda install -c conda-forge openjpeg 通过 anaconda 提示安装了 openJPEG，但仍然给我同样的错误。

我哪里错了？

Answer 1

似乎某些库和包不适用于 python 3.7 及更高版本。我不得不从我的电脑上完全删除 Anaconda 并重新安装它。然后通过 Anaconda Prompt 降级到 python 3.6.10，因为 Jubyter Notebook 的默认值是 3.7。然后我安装了所需的库和包，但是，它不适用于 Jubyter Notebook，而是与 JubyterLab 完美配合。

NotImplementedError: this transfer syntax JPEG 2000 Image Compression, can not be read because Pillow lacks the jpeg 2000 decoder plugin

NotImplementedError: this transfer syntax JPEG 2000 Image Compression, can not be read because Pillow lacks the jpeg 2000 decoder plugin

python

pydicom

jpeg2000