[Insight-users] cannot open DICOM with ITK 4.3.1

Tue Jun 4 09:53:16 EDT 2013

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
>>>>>>>
>>>>>>> ----------------------------------------------------------------------------------------------------------
>>>>>>>
>>>>>>>
>>>>>>> _____________________________________
>>>>>>> Powered by www.kitware.com
>>>>>>>
>>>>>>> Visit other Kitware open-source projects at
>>>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>>>
>>>>>>> Kitware offers ITK Training Courses, for more information visit:
>>>>>>> http://www.kitware.com/products/protraining.php
>>>>>>>
>>>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>>>>>>
>>>>>>> Follow this link to subscribe/unsubscribe:
>>>>>>> http://www.itk.org/mailman/listinfo/insight-users
>>>>>>>
>>>>>>>
>>>>>>
>>>>>>
>>>>>> --
>>>>>> Unpaid intern in BillsBasement at noware dot com
>>>>>>
>>>>>
>>>>>
>>>>
>>>
>>>
>>> --
>>> Unpaid intern in BillsBasement at noware dot com
>>>
>>
>>
>
> _____________________________________
> Powered by www.kitware.com
>
> Visit other Kitware open-source projects at
> http://www.kitware.com/opensource/opensource.html
>
> Kitware offers ITK Training Courses, for more information visit:
> http://www.kitware.com/products/protraining.php
>
> Please keep messages on-topic and check the ITK FAQ at:
> http://www.itk.org/Wiki/ITK_FAQ
>
> Follow this link to subscribe/unsubscribe:
> http://www.itk.org/mailman/listinfo/insight-users
>
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://www.itk.org/pipermail/insight-users/attachments/20130604/82b22c73/attachment.htm>