[vtkusers] Re: dicom data convertion and problem.

[Peter Spring]

ok i do not think vtkImageReader is a proper way to read dicom files.
so for dicom files, u just forget the vtkImageReader.

here i give u a pipeline for doing it.

vtkDICOMImageReader->vtkImageCast->vtkImageGaussianSmooth->vtkContourFilter->vtkPolyDataNormals->vtkPolyDataMapper

after that u create something like

vtkPolyDataWriter PDW
PDW SetInput [yourcontourfilter GetOutput]
bla bla ...


if you data is huge...(most CT data is huge) u may sub-sampling it to
make it manageable.
i do not have any decent java code for this here. above might help.

thanks.

Yours

P.


On 12/24/06, iii-lin <iii-lin at 163.com> wrote:
> hello Peter Spring and everyone,
>    Thanks you advice!I still have some problems,can you help me?thanks.
>    How to read dicom files and use vtkPolyDataWriter to write to a .vtk
> file?can you give me a sample code?
>
>    I use vtkDICOMImageReader to read the data formats such as
> dataSpacing,and use vtkImageReader to use this formats to read the data,
> //////////////////////////////
>    vtkDICOMImageReader *reader = vtkDICOMImageReader::New();
>
> reader->SetDirectoryName("D:\\lmhjava\\vtksource\\dicom");
>    reader->Update();
>    //follow codes read the formats of dicom files.
>
> ////May be use vtkImageReader to read the dcm file is wrong.but I can not
> find other ways.
> vtkImageReader *imageReader = vtkImageReader::New();
> imageReader->SetFilePrefix( outputImagePrefix );
> imageReader->SetFilePattern( "%s.%03d.dcm" );///May be wrong
> imageReader->SetDataExtent( imageExtent );//Format read from
> vtkDICOMImageReader
> imageReader->SetDataByteOrderToBigEndian();
> imageReader->Update();
> vtkImageWriter *imageWriter = vtkImageWriter::New();
> imageWriter->SetInput( imageReader->GetOutput() );
> dicomImageReader->Delete();
> imageWriter->SetFilePrefix( outputImagePrefix );
> imageWriter->SetFilePattern( "%s.%03d" );//I just want to write dcm files
> into files like VTKData/headsq/quarter
> imageWriter->Write();
> imageWriter->Delete();
> ////////////////////////////////////////////////////////////
> And use the the follow code to read the sample headsq/quarter data,and write
> to a vtk file.I just want to convert the dicom file to datas like
> headsq/quarter,and write to a vtk file.
> //////////////////////////////
> //the follow codes I have tested.
> package require vtk
> package require vtkinteraction
> vtkVolume16Reader v16
>   v16 SetDataDimensions 256 256
>   v16 SetDataByteOrderToLittleEndian
>   v16 SetFilePrefix  "VTKData/fullHead/headsq"
>   v16 SetImageRange 1 93
>   v16 SetDataSpacing  1.0 1.0 2
> vtkImageGaussianSmooth GaussianSmooth
>   GaussianSmooth SetInput [v16 GetOutput]
>   GaussianSmooth SetDimensionality 3
>   GaussianSmooth SetStandardDeviations 0.0 4.0
> vtkContourFilter skinExtractor
>   skinExtractor SetInput [GaussianSmooth GetOutput]
>   skinExtractor SetValue 0 500
>   skinExtractor Update
> vtkSmoothPolyDataFilter smoother
>   smoother SetInput [skinExtractor GetOutput]
>   smoother SetNumberOfIterations 70
> vtkPolyDataNormals skinNormals
>   skinNormals SetInput [smoother GetOutput]
>   skinNormals SetFeatureAngle 60.0
> vtkPolyDataWriter pdw
>   pdw SetInput [skinNormals GetOutput]
>   pdw SetFileName "C:/zhangh/VTK/out.vtk"
>   pdw Write
> ////////////////////////////////////////////////////////
>
>
> In your advice,use dicom2 to convert dcm files to raw data,and use
> vtkUolume16Reader to read and use vtkPolyDataWriter to write to a vtk file?
>
> thanks you advice,thanks everybody's advice.
>
>
>
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