[ITK] Getting ImageType for TIFF
Мар'ян Климов
nekto1989 at gmail.com
Fri Aug 15 04:53:41 EDT 2014
Hi,
I don't mind. After changes that Ivan Kubarev proposed this image is being
read to unsigned short properly for me. Problem may be the same for 64-bit
TIFF.
Marian
2014-08-14 17:18 GMT+03:00 Matt McCormick <matt.mccormick at kitware.com>:
> Thanks for the nice example!
>
>
> I have been able to reproduce the output. If it is a bug, can the
> given image be added to the repository as part of a unit test?
>
> Thanks,
> Matt
>
> On Thu, Aug 14, 2014 at 9:51 AM, Мар'ян Климов <nekto1989 at gmail.com>
> wrote:
> > Image Watch during debugging in Visual Studio.
> > Windows Photo Viewer after results dumped to disk.
> >
> >
> > 2014-08-14 15:35 GMT+03:00 Bill Lorensen <bill.lorensen at gmail.com>:
> >
> >> How are you displaying the unsigned short image? Many viewers cannot
> >> properly display unsigned short.
> >>
> >> On Aug 14, 2014 7:23 AM, "Мар'ян Климов" <nekto1989 at gmail.com> wrote:
> >>>
> >>> 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
> >>>>> >> >
> >>>>> >
> >>>>> >
> >>>>
> >>>>
> >>>
> >>>
> >>> _______________________________________________
> >>> Community mailing list
> >>> Community at itk.org
> >>> http://public.kitware.com/mailman/listinfo/community
> >>>
> >
>
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