[ITK] Getting ImageType for TIFF

[Мар'ян Климов]

Hi,

I've tried different methods. Reading to RGBPixel<unsigned char>, then
using RGBToLuminanceImageFilter and MultiplyImageFilter (2 ^ 8) produces
the same visually proper image. Reading directly to <unsigned short, 2>
fails. Looks like this is bug in TIFFImageIO and not in the way it is being
called.
http://itk-users.7.n7.nabble.com/TiffIO-strange-behaviour-td32215.html

Marian


2014-08-13 23:55 GMT+03:00 Мар'ян Климов <nekto1989 at gmail.com>:

> Hi Matt,
>
> I hope this is proper cmakelists.txt. I'm used to using ITK connected
> through *.props into Visual Studio solution.
>
> Best regards,
> Marian
>
>
>
> 2014-08-13 22:52 GMT+03:00 Matt McCormick <matt.mccormick at kitware.com>:
>
> Hi Marian,
>>
>> Thanks for the update.  Offhand, I am not seeing the issue.
>>
>> Could you please post a SSCCE [1], i.e. CMakeLists.txt, the code, and
>> the input data?
>>
>> Thanks,
>> Matt
>>
>> [1] http://sscce.org/
>>
>> On Wed, Aug 13, 2014 at 2:27 PM, Мар'ян Климов <nekto1989 at gmail.com>
>> wrote:
>> > {
>> >     typedef unsigned short PixelType;
>> >     typedef itk::Image<PixelType, 2> ImageType;
>> >     auto reader = itk::ImageFileReader<
>> > ImageType>::New();
>> >     reader->SetFileName("D:/TestData/input/input.tif");
>> >     reader->SetImageIO(itk::TIFFImageIO::New());
>> >
>> >     typedef unsigned short OutputPixelType;
>> >     typedef itk::Image<OutputPixelType, 2> OutputImageType;
>> >
>> >     auto writer = itk::ImageFileWriter<OutputImageType>::New();
>> >     writer->SetFileName("D:/TestData/output/ushort_to_ushort.tif");
>> >     auto image_io = itk::TIFFImageIO::New();
>> >     image_io->SetPixelType(itk::ImageIOBase::SCALAR);
>> >     writer->SetImageIO(image_io);
>> >     writer->SetInput(reader->GetOutput());
>> >     writer->Update(); //produces completely black
>> >     }
>> >
>> >     {
>> >     typedef itk::RGBAPixel<char> PixelType;
>> >     typedef itk::Image<PixelType, 2> ImageType;
>> >     auto reader = itk::ImageFileReader<ImageType>::New();
>> >     reader->SetFileName("D:/TestData/input/input.tif");
>> >     reader->SetImageIO(itk::TIFFImageIO::New());
>> >     reader->Update();
>> >
>> >     typedef unsigned short OutputPixelType;
>> >     typedef itk::Image<OutputPixelType, 2> OutputImageType;
>> >
>> >     auto input_image = reader->GetOutput();
>> >     auto output_image = OutputImageType::New();
>> >     output_image->CopyInformation(input_image);
>> >     output_image->SetRegions(input_image->GetLargestPossibleRegion());
>> >     output_image->Allocate();
>> >     itk::ImageRegionConstIterator<ImageType> const_iterator(input_image,
>> > input_image->GetLargestPossibleRegion());
>> >     itk::ImageRegionIterator<OutputImageType>
>> > rescaled_iterator(output_image,
>> output_image->GetLargestPossibleRegion());
>> >     for (const_iterator.GoToBegin(), rescaled_iterator.GoToBegin();
>> > !const_iterator.IsAtEnd(); ++const_iterator, ++rescaled_iterator)
>> >       {
>> >       const PixelType& pixel = const_iterator.Get();
>> >       rescaled_iterator.Set(((pixel.GetAlpha() * 16 + pixel.GetRed()) *
>> 16 +
>> > pixel.GetGreen()) * 16 + pixel.GetBlue());
>> >       }
>> >
>> >     auto writer = itk::ImageFileWriter<OutputImageType>::New();
>> >     writer->SetFileName("D:/TestData/output/rgba_char_to_ushort.tif");
>> >     auto image_io = itk::TIFFImageIO::New();
>> >     image_io->SetPixelType(itk::ImageIOBase::SCALAR);
>> >     writer->SetImageIO(image_io);
>> >     writer->SetInput(output_image);
>> >     writer->Update(); //output looks the same
>> >     }
>> >
>> >
>> > 2014-08-13 20:50 GMT+03:00 Matt McCormick <matt.mccormick at kitware.com>:
>> >>
>> >> Hi Marian,
>> >>
>> >>
>> >> If
>> >>
>> >>   itk::Image< unsigned  short, 2 >
>> >>
>> >> is used for the ImageType, does it work (note the dimension
>> >> specification).
>> >>
>> >> HTH,
>> >> Matt
>> >>
>> >> On Wed, Aug 13, 2014 at 1:47 PM, Мар'ян Климов <nekto1989 at gmail.com>
>> >> wrote:
>> >> > Hi,
>> >> >
>> >> > How to properly read 32-bit TIFF? I need to get itk::Image<unsigned
>> >> > short>
>> >> > on output. If I use it as ImageType for ImageFileReader, it is read
>> as
>> >> > fully
>> >> > black (checked contrast with Image Watch and it is for sure
>> completely
>> >> > empty). If I read it with pixel type RGBPixel<unsigned char> or
>> >> > RGBAPixel<unsigned char>, it is read properly. But I need to convert
>> it
>> >> > manually to unsigned short after this. So what is the proper way of
>> >> > reading
>> >> > it? Do I need to create templated methods for every pixeltype with
>> >> > conversions to unsigned short?
>> >> >
>> >> > Best regards,
>> >> > Marian
>> >> >
>> >> > _______________________________________________
>> >> > Community mailing list
>> >> > Community at itk.org
>> >> > http://public.kitware.com/mailman/listinfo/community
>> >> >
>> >
>> >
>>
>
>
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