[Insight-users] cannot open DICOM with ITK 4.3.1

Tue Jun 4 11:07:48 EDT 2013

It worked with 3.20 and 4.x series. I most recently built it with
4.3.x-git, I believe.

On Tue, Jun 4, 2013 at 5:05 PM, Luca Tersi <lucatersi at gmail.com> wrote:

> I tried your code with the same issue. What ITK version are you using,
> under which platform?
> In my linux system it works only with ITK4.2.1 but not with 4.3.x or 4.4.0.
>
>
> ---
>
> ----------------------------------------------------------------------------------------------------------
>
>
> On 4 June 2013 15:53, Dženan Zukić <dzenanz at gmail.com> wrote:
>
>> I can read it without any problem using this tool:
>>
>> http://itk-insight-users.2283740.n2.nabble.com/How-to-compare-the-result-of-segmentation-with-ground-truth-tp7583172p7583184.html
>>
>>
>> On Mon, Jun 3, 2013 at 2:04 PM, Luca Tersi <lucatersi at gmail.com> wrote:
>>
>>> Has anybody tried to read my image file (available here<https://dl.dropboxusercontent.com/u/9312078/frame0001.dcm>)?
>>>
>>> Do you think my problem is related to the image itself or to my ITK
>>> compilation?
>>>
>>> Thanks
>>>
>>> Luca
>>>
>>>
>>> ---
>>>
>>> ----------------------------------------------------------------------------------------------------------
>>>
>>>
>>> On 21 May 2013 17:35, Luca Tersi <lucatersi at gmail.com> wrote:
>>>
>>>> Ok, you can download it from here<https://dl.dropboxusercontent.com/u/9312078/frame0001.dcm>
>>>> .
>>>> It is part of a DICOM series already processed and saved with ITK.
>>>> Thanks for your help.
>>>> L
>>>>
>>>>
>>>> ---
>>>>
>>>> ----------------------------------------------------------------------------------------------------------
>>>>
>>>>
>>>> On 21 May 2013 17:22, Bill Lorensen <bill.lorensen at gmail.com> wrote:
>>>>
>>>>> The compiler should not matter.
>>>>>
>>>>> Can you share a dicom file that you cannot open?
>>>>>
>>>>>
>>>>> On Tue, May 21, 2013 at 11:14 AM, Luca Tersi <lucatersi at gmail.com>wrote:
>>>>>
>>>>>> Dear Bill,
>>>>>>
>>>>>> I finally managed to test my code on a Windows platform (MinGW) using
>>>>>> ITK 4.3.2 and everything seems to work properly.
>>>>>> I tried again on linux and both 4.3.1 and 4.3.2 do not work.
>>>>>>
>>>>>> Might it be a compiler related issue? (gcc 4.8 on linux and 4.7 on
>>>>>> windows)
>>>>>>
>>>>>> Thanks a lot
>>>>>>
>>>>>> Luca
>>>>>>
>>>>>>
>>>>>>
>>>>>> ---
>>>>>>
>>>>>> ----------------------------------------------------------------------------------------------------------
>>>>>>
>>>>>>
>>>>>> On 21 April 2013 00:50, Luca Tersi <lucatersi at gmail.com> wrote:
>>>>>>
>>>>>>> Yes, it could be read. I can switch between 4.3.1 and 4.2.1 (same
>>>>>>> cmake settings): I can open any DICOM file with 4.2.1 but not with 4.3.1.
>>>>>>> Maybe I'm missing something..
>>>>>>> Thanks a lot
>>>>>>> Luca
>>>>>>>
>>>>>>> PS. I'm working on Linux Manjaro 64-bit, next week I will try to run
>>>>>>> it on Windows
>>>>>>>
>>>>>>>
>>>>>>> ---
>>>>>>>
>>>>>>> ----------------------------------------------------------------------------------------------------------
>>>>>>>
>>>>>>>
>>>>>>> On 19 April 2013 21:09, Bill Lorensen <bill.lorensen at gmail.com>wrote:
>>>>>>>
>>>>>>>> Are you saying the same file could be read prior to the upgrade?
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> On Wed, Apr 17, 2013 at 5:26 AM, Luca Tersi <lucatersi at gmail.com>wrote:
>>>>>>>>
>>>>>>>>> Dear all,
>>>>>>>>>
>>>>>>>>> I've been using ITK and VTK for a while, but after a recent
>>>>>>>>> upgrade to ITK4.3.1, I cannot open DICOM series or single .dcm files. I
>>>>>>>>> obtain the following exception:
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> itk::ExceptionObject (0x2a12eb0)
>>>>>>>>>
>>>>>>>>> Location: "unknown"
>>>>>>>>>
>>>>>>>>> File:
>>>>>>>>> /home/lt/Work/FLUORO/kitware/ITK4.3.1_src/Modules/IO/GDCM/src/itkGDCMImageIO.cxx
>>>>>>>>>
>>>>>>>>> Line: 335
>>>>>>>>>
>>>>>>>>> Description: itk::ERROR: GDCMImageIO(0x3180830): Cannot read
>>>>>>>>> requested file
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> This is my code:
>>>>>>>>>
>>>>>>>>>  QString filename = QFileDialog::getOpenFileName(currentDir, "*",
>>>>>>>>> this, "Open file dialog", "Choose Input DICOM File" );
>>>>>>>>>   if ( filename.length()  == 0 )
>>>>>>>>>     {
>>>>>>>>>       cout<<"aborted"<<endl;
>>>>>>>>>       return;
>>>>>>>>>     }
>>>>>>>>>
>>>>>>>>>   typedef itk::Image< IntPixelType, voxelDimension >
>>>>>>>>> IntVolumeType;
>>>>>>>>>   typedef itk::ImageFileReader< IntVolumeType >
>>>>>>>>> IntVolumeReaderType;
>>>>>>>>>   IntVolumeReaderType::Pointer reader=IntVolumeReaderType::New();
>>>>>>>>>   reader->SetFileName ( filename.latin1() );
>>>>>>>>>   ImageIOType::Pointer gdcmImageIO = ImageIOType::New();
>>>>>>>>>   reader->SetImageIO ( gdcmImageIO );
>>>>>>>>>
>>>>>>>>>   try
>>>>>>>>>   {
>>>>>>>>>     reader->Update();
>>>>>>>>>   }
>>>>>>>>>   catch ( itk::ExceptionObject & excp )
>>>>>>>>>   {
>>>>>>>>>     std::cerr << "Error reading the images " << std::endl;
>>>>>>>>>     std::cerr << excp << std::endl;
>>>>>>>>>     return;
>>>>>>>>>   }
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> If I do not specify any IO object (it was working with ITK4.2.1) I
>>>>>>>>> get:
>>>>>>>>>
>>>>>>>>> itk::ImageFileReaderException (0x13a7510)
>>>>>>>>>
>>>>>>>>> Location: "void itk::ImageFileReader<TOutputImage,
>>>>>>>>> ConvertPixelTraits>::GenerateOutputInformation() [with TOutputImage =
>>>>>>>>> itk::Image<short unsigned int, 3u>; ConvertPixelTraits =
>>>>>>>>> itk::DefaultConvertPixelTraits<short unsigned int>]"
>>>>>>>>>
>>>>>>>>> File:
>>>>>>>>> /home/lt/Work/FLUORO/kitware/ITK4.3.1_src/Modules/IO/ImageBase/include/itkImageFileReader.hxx
>>>>>>>>>
>>>>>>>>> Line: 143
>>>>>>>>>
>>>>>>>>> Description: Could not create IO object for file
>>>>>>>>> /run/media/lt/CODONICS/DICOM/ST000000/SE000015/XA000000
>>>>>>>>>
>>>>>>>>> Tried to create one of the following:
>>>>>>>>>
>>>>>>>>> JPEGImageIO
>>>>>>>>>
>>>>>>>>> GDCMImageIO
>>>>>>>>>
>>>>>>>>> BMPImageIO
>>>>>>>>>
>>>>>>>>> LSMImageIO
>>>>>>>>>
>>>>>>>>> PNGImageIO
>>>>>>>>>
>>>>>>>>> TIFFImageIO
>>>>>>>>>
>>>>>>>>> VTKImageIO
>>>>>>>>>
>>>>>>>>> StimulateImageIO
>>>>>>>>>
>>>>>>>>> BioRadImageIO
>>>>>>>>>
>>>>>>>>> MetaImageIO
>>>>>>>>>
>>>>>>>>> NiftiImageIO
>>>>>>>>>
>>>>>>>>> NrrdImageIO
>>>>>>>>>
>>>>>>>>> GiplImageIO
>>>>>>>>>
>>>>>>>>> HDF5ImageIO
>>>>>>>>>
>>>>>>>>> You probably failed to set a file suffix, or
>>>>>>>>>
>>>>>>>>> set the suffix to an unsupported type.
>>>>>>>>>
>>>>>>>>> Is anybody having the same issue? Do you have any hints?
>>>>>>>>>
>>>>>>>>> Thanks in advance
>>>>>>>>>
>>>>>>>>> Luca
>>>>>>>>> ---
>>>>>>>>>
>>>>>>>>> *Luca Tersi, Ph.D.*
>>>>>>>>> *Health Sciences and Technologies - Interdepartmental Center for
>>>>>>>>> Industrial Research (HST - ICIR) *
>>>>>>>>> *Alma Mater Studiorum - University of Bologna; *Via Cavalcavia
>>>>>>>>> 797, I-47521 Cesena (FC) - Italy
>>>>>>>>>
>>>>>>>>> ----------------------------------------------------------------------------------------------------------
>>>>>>>>>
>>>>>>>>>
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>>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> --
>>>>>>>> Unpaid intern in BillsBasement at noware dot com
>>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>
>>>>>
>>>>>
>>>>> --
>>>>> Unpaid intern in BillsBasement at noware dot com
>>>>>
>>>>
>>>>
>>>
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>>
>
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