[ITK-users] Lost Patient, Study and Series DICOM tags

[Dženan Zukić]

Hi Piotr,

instead of ImageReader->GetMetaDataDictionary() call
ImageSeriesReader->GetMetaDataDictionary(). Also, the image format you are
writing to needs to be able to support metadata (e.g. .mha, .nrrd, DICOM),
otherwise the metadata is lost (.nii, .jpg, .bmp etc).

But for writing DICOM, the process might be somewhat different from what I
described in the first email. Definitely different if you want metadata
copied slice for slice from input to output - in this case some metadata
needs to be changed anyway, such as flag that this is a derived image and
not an original image coming out of a scanner.

I suppose that MetaDataDictionary class is not wrapped. You can then loop
through all the keys and copy them and their content one by one.

Regards

On Thu, Jul 7, 2016 at 8:35 AM, Piotr Piasecki <piotpia124 at student.polsl.pl>
wrote:

> Hi Dženan,
>
> thank you for your help and for this example. Unfortunately, I have not
> found method GetMetaDataDictionary() in SimpleITK in C# (I found only
> GetMetaDataKeys() and GetMetaData(string key)). Also, I have not found a
> method SetMetaDataDictionary or any other that allows me to assign DICOM
> tags.
>
> My short piece of code looks like this:
>
> static public void ReadImage()
>         {
>             sitk.ImageFileReader reader = new sitk.ImageFileReader();
>             reader.SetFileName(@".\DICOM_TEST\original.dcm");
>             var image = reader.Execute();
>
>             sitk.ImageFileWriter writer = new sitk.ImageFileWriter();
>             writer.SetFileName(@".\DICOM_TEST\modified.dcm");
>             writer.Execute(image);
>         }
>
> Another problem is that your example describes only loading and saving a
> single .dcm file. What if I have to process a whole series of files using
> sitk.ImageSeriesReader and sitk.ImageSeriesWriter?
>
> Regards,
>
> Peter.
>
> 2016-07-05 15:45 GMT+02:00 Dženan Zukić <dzenanz at gmail.com>:
>
>> Hi Piotr,
>>
>> if you want to carry over metadata from input image to output image, you
>> should save the metadata dictionary in a way similar to this:
>>
>> itk::MetaDataDictionary metadata;
>>
>> template< typename TImage >
>> itk::SmartPointer<TImage> readImage(std::string fileName)
>> {
>>     typedef itk::ImageFileReader<TImage> ReaderType;
>>     typename ReaderType::Pointer reader = ReaderType::New();
>>     reader->SetFileName(fileName.c_str());
>>     try
>>     {
>>         reader->Update();
>>         metadata = reader->GetMetaDataDictionary();
>>         return reader->GetOutput();
>>     }
>>     catch (itk::ExceptionObject & error)
>>     {
>>         std::cerr << "Error: " << error << std::endl;
>>         return NULL;
>>     }
>> }
>>
>> template< typename TImage >
>> void writeImage(itk::SmartPointer<TImage> image, std::string fileName)
>> {
>>     image->SetMetaDataDictionary(metadata); //full metadata
>>     typedef itk::ImageFileWriter<TImage> WriterType;
>>     typename WriterType::Pointer writer = WriterType::New();
>>     writer->SetFileName(fileName.c_str());
>>     writer->SetInput(image);
>>     try
>>     {
>>         writer->Update();
>>     }
>>     catch (itk::ExceptionObject & error)
>>     {
>>         std::cerr << "Error: " << error << std::endl;
>>     }
>> }
>>
>> On Tue, Jul 5, 2016 at 2:46 AM, Piotr Piasecki <
>> piotpia124 at student.polsl.pl> wrote:
>>
>>> Dear Sir or Madam.
>>>
>>> I am a student in Biomedical Engineering at the Silesian University of
>>> Technology. During my studies I worked with ITK and SimpleITK in C#. I want
>>> to use them in my current project, but I have an important question. After
>>> loading and processing a series of .dcm files I lost information about the
>>> patient and study to which they belong, and that they belong to one series.
>>> How can I keep this information?
>>>
>>> I will be very grateful for any answer.
>>>
>>> Best regards.
>>>
>>> Peter.
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>>
>>
>
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