pydicom.dataset.PropertyError: AttributeError in pixel_array property: 'Dataset' object has no attribute 'TransferSyntaxUID'

[Victor Gabriel]

Hi Guys,

I have been  trying to access pixel array attribute from a Dicom-RT file with no success.

Here it is the terminal traceback:

File download link.

import pydicom as dicom

import platform

print('System: ', platform.python_version(), platform.system())

print('PyDicom', dicom.__version__)

dose = 'RTDOSE1.2.826.0.1.3680043.2.200.189365528.430.25677.1488.dcm'

ds = dicom.read_file(dose)

print(ds.pixel_array)

System:  3.4.4 Linux

PyDicom 1.0.0a1

Traceback (most recent call last):

  File "/home/victor/miniconda3/lib/python3.4/site-packages/pydicom-1.0.0a1-py3.4.egg/pydicom/dataset.py", line 483, in __getattr__

    raise AttributeError

AttributeError

During handling of the above exception, another exception occurred:

Traceback (most recent call last):

  File "/home/victor/miniconda3/lib/python3.4/site-packages/pydicom-1.0.0a1-py3.4.egg/pydicom/dataset.py", line 995, in pixel_array

    return self._get_pixel_array()

  File "/home/victor/miniconda3/lib/python3.4/site-packages/pydicom-1.0.0a1-py3.4.egg/pydicom/dataset.py", line 972, in _get_pixel_array

    if not already_have and not self._is_uncompressed_transfer_syntax():

  File "/home/victor/miniconda3/lib/python3.4/site-packages/pydicom-1.0.0a1-py3.4.egg/pydicom/dataset.py", line 616, in _is_uncompressed_transfer_syntax

    return self.file_meta.TransferSyntaxUID in NotCompressedPixelTransferSyntaxes

  File "/home/victor/miniconda3/lib/python3.4/site-packages/pydicom-1.0.0a1-py3.4.egg/pydicom/dataset.py", line 488, in __getattr__

    return super(Dataset, self).__getattribute__(name)

AttributeError: 'Dataset' object has no attribute 'TransferSyntaxUID'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):

  File "/home/victor/miniconda3/lib/python3.4/site-packages/IPython/core/interactiveshell.py", line 2881, in run_code

    exec(code_obj, self.user_global_ns, self.user_ns)

  File "<ipython-input-22-18b576aad5c0>", line 9, in <module>

    print(ds.pixel_array)

  File "/home/victor/miniconda3/lib/python3.4/site-packages/pydicom-1.0.0a1-py3.4.egg/pydicom/dataset.py", line 1000, in pixel_array

    compat.reraise(PropertyError, val, tb)

  File "/home/victor/miniconda3/lib/python3.4/site-packages/pydicom-1.0.0a1-py3.4.egg/pydicom/compat.py", line 31, in reraise

    raise value.with_traceback(tb)

  File "/home/victor/miniconda3/lib/python3.4/site-packages/pydicom-1.0.0a1-py3.4.egg/pydicom/dataset.py", line 995, in pixel_array

    return self._get_pixel_array()

  File "/home/victor/miniconda3/lib/python3.4/site-packages/pydicom-1.0.0a1-py3.4.egg/pydicom/dataset.py", line 972, in _get_pixel_array

    if not already_have and not self._is_uncompressed_transfer_syntax():

  File "/home/victor/miniconda3/lib/python3.4/site-packages/pydicom-1.0.0a1-py3.4.egg/pydicom/dataset.py", line 616, in _is_uncompressed_transfer_syntax

    return self.file_meta.TransferSyntaxUID in NotCompressedPixelTransferSyntaxes

  File "/home/victor/miniconda3/lib/python3.4/site-packages/pydicom-1.0.0a1-py3.4.egg/pydicom/dataset.py", line 488, in __getattr__

    return super(Dataset, self).__getattribute__(name)

pydicom.dataset.PropertyError: AttributeError in pixel_array property: 'Dataset' object has no attribute 'TransferSyntaxUID'

Thanks,

Victor Alves

[Aditya Panchal]

See the issue https://github.com/darcymason/pydicom/issues/341 and related pull request for a potential fix.

Seems like there was no catch if the file_meta_info did not contain the Transfer Syntax UID, which is required by the recent changes to handle compressed syntaxes in dataset.py.

Also the original test file (meta_missing_tsyntax.dcm) from issue 258 fails with the same error you get if you try to access the pixel data after the compression work was put in.

Adit

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[Victor Gabriel]

Hi Adit,

I applied your fix. Everything fine now.

Thank you very much. 

Victor Alves 

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Dr. Victor Gabriel Leandro Alves, D. Sc.

Clinical Medical Physicist - Quality Audits

Instituto Nacional de Câncer - Brazil