ITK笔记--读取3D NIFTI图像并用VTK可视化

ITK笔记--读取3D NIFTI图像并用VTK可视化

版本：ITK-5.2.1，VTK-9.1
注意：在编译 ITK 时，需要编译 ITK 的 module_vtkGlue 模块

我们使用 ITK 读取一个 3D 的 NIFTI 图像，并将其转换为 VTK 图像以可视化图像。代码中主要涉及到的类和函数如下：

C++代码如下：

#include 
#include 
#include 
#include 
#include 
#include 
#include 
#include 
#include 
#include 
#include 
#include 
#include 
#include 
VTK_MODULE_INIT(vtkRenderingOpenGL2);
VTK_MODULE_INIT(vtkInteractionStyle);


int main()
{
	// File name settings
	const char* fileName = "image.nii.gz";
	

	// Define ImageType, ReaderType, ImageIOType and read file
	using PixelType = short;
	constexpr unsigned int Dimension = 3;
	using ImageType = itk::Image;
	using ReaderType = itk::ImageFileReader;
	using ImageIOType = itk::NiftiImageIO;
	ReaderType::Pointer reader = ReaderType::New();
	ImageIOType::Pointer niftiIO = ImageIOType::New();
	reader -> SetImageIO(niftiIO);
	reader -> SetFileName(fileName);
	reader -> Update();


	// Print img size
	ImageType::SizeType imgSize = reader -> GetOutput() -> GetLargestPossibleRegion().GetSize();
	std::cout << "read done! img size: " << imgSize << std::endl;


	// Convert itkImage to vtkImage
	using ConvertFilter = itk::ImageToVTKImageFilter;
	ConvertFilter::Pointer convertFilter = ConvertFilter::New();
	convertFilter -> SetInput(reader -> GetOutput());
	convertFilter -> Update();


	// Extract vtkImageData contour to vtkPolyData
	vtkNew contour;
	contour -> SetInputData(convertFilter -> GetOutput());


	// Define colors, mapper, actor, renderer, renderWindow, renderWindowInteractor
	vtkNew colors;

	vtkNew mapper;
	mapper -> SetInputConnection(contour -> GetOutputPort());

	vtkNew actor;
	actor -> SetMapper(mapper);

	vtkNew renderer;
	renderer -> AddActor(actor);
	renderer -> SetBackground(colors -> GetColor3d("SteelBlue").GetData());

	vtkNew renderWindow;
	renderWindow -> AddRenderer(renderer);

	vtkNew renderWindowInteractor;
	renderWindowInteractor -> SetRenderWindow(renderWindow);
	renderWindowInteractor -> Initialize();
	renderWindowInteractor -> Start();

	return 0;
}

Python代码如下：

import argparse
import itk
from vtkmodules.vtkCommonColor import vtkNamedColors
from vtkmodules.vtkFiltersGeneral import vtkDiscreteMarchingCubes
from vtkmodules.vtkRenderingCore import vtkActor, vtkPolyDataMapper, vtkRenderer, 
		vtkRenderWindow, vtkRenderWindowInteractor


def get_argument():
    parser = argparse.ArgumentParser()

    # Data settings
    parser.add_argument('--nifti_file_name', default='image.nii.gz')

    args = parser.parse_args()
    return args


def main():
    args = get_argument()

    # Read NIFTI file
    itk_img = itk.imread(filename=args.nifti_file_name)
    print(itk_img)

    # Convert itk to vtk
    vtk_img = itk.vtk_image_from_image(l_image=itk_img)
    print(vtk_img)

    # Extract vtkImageData contour to vtkPolyData
    contour = vtkDiscreteMarchingCubes()
    contour.SetInputData(vtk_img)

    # Define colors, mapper, actor, renderer, renderWindow, renderWindowInteractor
    colors = vtkNamedColors()

    mapper = vtkPolyDataMapper()
    mapper.SetInputConnection(contour.GetOutputPort())

    actor = vtkActor()
    actor.SetMapper(mapper)

    renderer = vtkRenderer()
    renderer.AddActor(actor)
    renderer.SetBackground(colors.GetColor3d("SteelBlue"))

    renderWindow = vtkRenderWindow()
    renderWindow.AddRenderer(renderer)

    renderWindowInteractor = vtkRenderWindowInteractor()
    renderWindowInteractor.SetRenderWindow(renderWindow)
    renderWindowInteractor.Initialize()
    renderWindowInteractor.Start()


if __name__ == '__main__':
    main()