[vtkusers] Re: Re: Re: Creating a Volume from 2D BMP files.
Amy Squillacote
amy.squillacote at kitware.com
Wed Sep 13 13:01:05 EDT 2006
Hi Ashish,
When you built VTK, was the VTK_USE_RENDERING CMake variable set to ON?
If it was, are you linking against the vtkVolumeRendering library?
- Amy
Ashish Singh wrote:
> Hi Yixun and Sharwari,
>
> I am trying to solve exactly similar problem but using DICOM images
> rather than bmp. But I am getting errors and I can't figure out why.
> My code is based on your previous conversation so far. The error that
> I get is:
> (1)error LNK2019: unresolved external symbol "public: static class
> vtkVolumeRayCastCompositeFunction * __cdecl
> vtkVolumeRayCastCompositeFunction::New(void)"
> (?New at vtkVolumeRayCastCompositeFunction@@SAPAV1 at XZ ) referenced in
> function _main
> (2)error LNK2019: unresolved external symbol "public: static class
> vtkVolumeRayCastMapper * __cdecl vtkVolumeRayCastMapper::New(void)"
> (?New at vtkVolumeRayCastMapper@@SAPAV1 at XZ) referenced in function _main
> (3)fatal error LNK1120: 2 unresolved externals
>
> Can you please help me figure out what's going wrong here?
>
> My code is as follows:
> -----
> #include "vtkConeSource.h"
> #include "vtkPolyDataMapper.h "
> #include "vtkRenderWindow.h"
> #include "vtkCamera.h"
> #include "vtkActor.h"
> #include "vtkImageActor.h"
> #include "vtkOutlineFilter.h"
> #include " vtkProperty.h"
> #include "vtkPolyDataNormals.h"
> #include "vtkContourFilter.h"
> #include "vtkDataSetMapper.h"
> #include "vtkImageMapper.h"
> #include "vtkPiecewiseFunction.h "
> #include "vtkVolumeProperty.h"
> #include "vtkRenderer.h"
> #include "conio.h"
> #include "vtkDICOMImageReader.h"
> #include "vtkImageViewer2.h"
> #include " vtkJPEGReader.h"
> #include "vtkRenderWindowInteractor.h"
> #include "vtkVolumeMapper.h"
> #include "vtkActor2D.h"
> #include "vtkPolyDataMapper.h"
> #include "vtkVolumeRayCastCompositeFunction.h "
> #include "vtkVolumeRayCastMapper.h"
>
> void main()
> {
>
> vtkRenderer *arenderer = vtkRenderer::New();
> vtkRenderWindow *renwin = vtkRenderWindow::New();
> vtkDICOMImageReader *img1=vtkDICOMImageReader::New();
>
> img1->SetFilePrefix("D:\\testimages\\dicomset\\IM");
> img1->SetFilePattern("%s%d.dcm");
> img1->SetFileNameSliceOffset(1);
> img1->SetFileNameSliceSpacing(1);
> img1->SetDataExtent(0,511,0,511,1,10);//512x512 images and 10 slices
> img1->SetDataSpacing(360.0/512,360.0/512,1.0); //my image is 36cm x
> 36cm and 512x512
> img1->SetDataOrigin(0.0,0.0,0.0);
> img1->Update();
>
> vtkVolume *vol=vtkVolume::New();
> vtkVolumeRayCastMapper *volumemapper = vtkVolumeRayCastMapper::New();
> vtkVolumeRayCastCompositeFunction
> *rcf=vtkVolumeRayCastCompositeFunction::New();
> volumemapper->SetVolumeRayCastFunction(rcf);
> volumemapper->SetInput(img1->GetOutput());
> vol->SetMapper(volumemapper);
>
> vtkCamera *cam=vtkCamera::New();
> cam->SetViewUp(0,0,-1);
> cam->SetPosition(0,1,0);
> cam->SetFocalPoint(0,0,0);
> cam->ComputeViewPlaneNormal();
>
> arenderer->AddActor(vol);
> arenderer->SetActiveCamera(cam);
> arenderer->ResetCamera();
> arenderer->SetBackground(1,1,1);
>
> renwin->AddRenderer(arenderer);
> vtkRenderWindowInteractor *iren=vtkRenderWindowInteractor::New();
> iren->SetRenderWindow(renwin);
> renwin->Render();
> iren->Initialize();
> iren->Start();
>
> img1->Delete();
> iren->Delete();
> }
> --------
> I would really appreciate if anyone can help me.
>
> Regards,
> Ashish
>
> On 9/7/06, *Sharwari Mavalankar* < sharwari at gmail.com
> <mailto:sharwari at gmail.com>> wrote:
>
> hi Yixun,
> I'll try and look into why the volume appears darker.
>
> However I'll there are many lines that are appearing on the volume
> (they look like striations).
> Do you know what the reason for that could be?
>
>
> Also if I have to visualize color bmp slices (24 bit ) I need
> vtkFixedPointVolumeRayCastMapper right?
> Thanks
> Sharwari
>
>
> On 9/6/06, *Yixun Liu* <yxliu at fudan.edu.cn
> <mailto:yxliu at fudan.edu.cn>> wrote:
>
> Hi,
> You are right and alwayse taking mm as the unit.
> SpacingX = 5.12*10/256;
> SpacingY = 5.12*10/256;
>
> Many reason can make the volume look darker.
> You can change the opacity and color interpolation function to
> adjust the appearance of the volume. If you use shade you can
> also change ambient or diffusion coefficient to make the
> volume look more lighter. Another method is to change the
> vtkLight in the renderer. vtkLight is a virtual light for 3D
> rendering. It provides methods to locate and point the light,
> turn it on and off, and set its brightness and color.
>
> Cheers,
>
> Yixun Liu
> ----- Original Message -----
> *From:* Sharwari Mavalankar <mailto:sharwari at gmail.com>
> *To:* Yixun Liu <mailto:yxliu at fudan.edu.cn>
> *Cc:* VTK <mailto:vtkusers at vtk.org>
> *Sent:* Thursday, September 07, 2006 1:43 AM
> *Subject:* Re: Re: Re: Creating a Volume from 2D BMP files.
>
>
> hi Yixun,
> Thank you very much for your email.
> What exactly do you mean by the physical size of the image?
> Does it mean the size of the image in cm or mm?
>
> For example if my original images are 5.12 cm * 5.12 cm and
> are 256 * 256 images.
> What will the data spacing be?
>
>
> Also can you tell me the reason why the 3D volume seems darker
> than the original images?
> Is there any way I can scale the intensity of the images?
> Thanks again,
> Sharwari
>
>
> On 9/3/06, *Yixun Liu* <yxliu at fudan.edu.cn
> <mailto:yxliu at fudan.edu.cn>> wrote:
>
> Hi,
> If you read color bmp files you should update vtk to 5.0
> version and use vtkFixedPointVolumeRayCastMapper(see last
> mail). Otherwise, you should not call
> br->SetNumberOfScalarComponents(3);
>
> 1. You can decide the physical spacing accroding to the
> image extent(pixel unit) and its physical size(mm):
> spacing = size/(extent-1); If no physical size you have to
> give a estimation for the spacing.
>
> 2.The point1 and point2 will define a linear opacity
> function, which can be interpolated from the two points.
> For example, define two points (intensity1, opacity1)and
> (intensity2, opacity2) you can get the opacity3 at
> intensity3 by opacity3 =
> (intensity3-intensity1)/(intensity2-intensity1)*(opacity2-opacity1)
> + opacity1
>
> Hope it help.
>
> Cheers,
>
> Yixun Liu
>
> ----- Original Message -----
> *From:* Sharwari Mavalankar <mailto:sharwari at gmail.com>
> *To:* Yixun Liu <mailto:yxliu at fudan.edu.cn>
> *Cc:* VTK <mailto:vtkusers at vtk.org>
> *Sent:* Monday, September 04, 2006 6:50 AM
> *Subject:* Re: Re: Creating a Volume from 2D BMP files.
>
>
> hi Yixun,
> I implemented the suggestions that you had made.
> Now I am getting a 3D volume but it doesnt look anything
> like the original 2D slices.
> It is much darker in appearance and it's got lines all
> over it ( it looks as though it's some kind of aliasing).
>
> I have the following questions to ask you
> 1.While using the function SetDataSpacing(x,y,z) how do I
> decide the values of the parameters x,y and z.
>
> 2.While using the Addpoint() function of class
> vtkPiecewiseFunction what do the two parameters in the
> Addpoint function mean?
> How do they affect the output?
>
>
> This is code I have used. Do let me know if you can make
> any more sugestions.
>
>
>
> //This program reads a single BMP file and plots it as an
> image.
> //The same program will be extended to read multiple
> images and create a 3D volume out of 2D slices.
>
>
> #include "vtkRenderer.h"
> #include "vtkRenderWindow.h"
> #include "vtkRenderWindowInteractor.h"
> #include "vtkBMPReader.h"
> #include "vtkPolyDataMapper.h"
> #include "vtkActor.h"
> #include "vtkActor2D.h"
> #include "vtkImageActor.h"
> #include "vtkOutlineFilter.h"
> #include "vtkCamera.h"
> #include "vtkProperty.h"
> #include "vtkPolyDataNormals.h"
> #include "vtkContourFilter.h"
> #include "vtkDataSetMapper.h"
> #include "vtkImageMapper.h"
> #include "vtkVolumeMapper.h"
> #include " vtkVolumeRayCastMapper.h"
> #include "vtkVolumeRayCastCompositeFunction.h"
> #include "vtkPiecewiseFunction.h"
> #include "vtkVolumeProperty.h"
>
>
> void main (void)
> {
>
> vtkRenderer *aRenderer = vtkRenderer::New();
> vtkRenderWindow *renWin = vtkRenderWindow::New();
>
> renWin->AddRenderer(aRenderer);
> vtkRenderWindowInteractor *iren =
> vtkRenderWindowInteractor::New();
> iren->SetRenderWindow(renWin);
>
>
> //create an instance of the class vtkBMPReader
> vtkBMPReader *br = vtkBMPReader::New();
>
> br->SetFilePrefix("C:\\Images\\conductivities\\slice");
> br->SetFilePattern("%s%d.bmp");
> br->SetFileNameSliceOffset(1);
> br->SetFileNameSliceSpacing(1);
> br->SetNumberOfScalarComponents(3);
> br->SetDataSpacing(0.4,0.4,10);
> br->SetDataOrigin(0,0,0);
> br->SetDataExtent(0,255,0,255,0,7);
> br->Update();
>
> vtkPiecewiseFunction *opacityTransferFunction =
> vtkPiecewiseFunction::New();
> opacityTransferFunction->AddPoint(20,0.2);
> opacityTransferFunction->AddPoint(255,1.0);
>
> vtkVolumeProperty *volumeProperty = vtkVolumeProperty::New();
> volumeProperty->SetScalarOpacity(opacityTransferFunction);
>
>
>
>
> vtkVolumeRayCastMapper *VolumeMapper =
> vtkVolumeRayCastMapper::New();
> vtkVolumeRayCastCompositeFunction *RayCastFunction =
> vtkVolumeRayCastCompositeFunction::New();
> VolumeMapper->SetVolumeRayCastFunction(RayCastFunction);
> VolumeMapper->SetInput(br->GetOutput());
>
>
> vtkVolume *volume = vtkVolume::New();
>
> VolumeMapper->SetInput(br->GetOutput());
> volume->SetMapper(VolumeMapper);
>
> vtkCamera *aCamera = vtkCamera::New();
> aCamera->SetViewUp (0, 0,-1);
> aCamera->SetPosition (0, 1, 0);
> aCamera->SetFocalPoint (0, 0, 0);
> aCamera->ComputeViewPlaneNormal();
>
>
> aRenderer->AddActor(volume);
> aRenderer->SetActiveCamera(aCamera);
> aRenderer->ResetCamera ();
> aRenderer->SetBackground(1,1,1);
> renWin->Render();
>
> iren->Initialize();
> iren->Start();
>
> }
>
>
> Thanks again for all your help.
> Sharwari
>
>
> On 8/31/06, *Yixun Liu* <yxliu at fudan.edu.cn
> <mailto:yxliu at fudan.edu.cn>> wrote:
>
> Hi,
> Assuming image is 256x256x100. The first file name is
> image1 and the last file name is image100. So,
> SetDataExtent(0, 255, 0, 255, 1, 100); The access
> violation may be caused by wrong extent setting.
>
> If you use vtkVolume, use
> vtkVolumeRayCastMapper(vtk4.2.2) or use
> vtkFixedPointVolumeRayCastMapper(vtk5.0). Note that if
> you use vtkFixedPointVolumeRayCastMapper you no need
> to call SetVolumeRayCastFunction();
>
> Hope it help.
>
> Yixun Liu
>
> ----- Original Message -----
> *From:* Sharwari Mavalankar
> <mailto:sharwari at gmail.com>
> *To:* Yixun Liu <mailto:yxliu at fudan.edu.cn>
> *Cc:* VTK <mailto:vtkusers at vtk.org>
> *Sent:* Thursday, August 31, 2006 6:37 PM
> *Subject:* Re: Creating a Volume from 2D BMP files.
>
>
> hi Yixun,
> Thanks for your email.I had a couple of more
> questions though.
> 1.I do not want to visualize colour slices.They
> are grey level images.
>
> 2.Also if I put SetDataExtent() before the
> Update() then I am getting an access violation
> error.What does the Update function do exactly?
> Also can you tell me what the five parameters in
> SetDataExtent() mean?
>
> 3.If I use vtkVolume what mapper should I use to
> visualize the slices?
>
>
> Thanks again for all your help.
> Sharwari
>
>
>
> On 8/23/06, *Yixun Liu* <yxliu at fudan.edu.cn
> <mailto:yxliu at fudan.edu.cn>> wrote:
>
> Hi,
>
> If you want to visualize color slices, you
> need to
> 1. read these slices. You need to put the
> SetDataExtent(0, 111, 0, 127, 1, 300);
> before Update();
>
> vtkTIFFReader *v16 = vtkTIFFReader::New();
> v16->SetFilePrefix("D:\\MyVC\\VTKtest\\Raycasting\\Data\\BrainColor\\brain");
> v16->SetFilePattern("%s%d.TIF");
> v16->SetDataExtent(0, 111, 0, 127, 1, 300);
> v16->SetDataSpacing(1.2,1.2,0.5);
> v16->SetDataOrigin(0.0, 0.0, 0.0);
> v16->SetNumberOfScalarComponents(3);
> v16->Update();
>
> 2. Add the 4th component. The first three
> components are color and the 4th is used to
> map to opacity. I compute the luminancy
> according to the firft three components and
> take it as the 4th component.
>
> 3. Opacity map using vtkPiecewiseFunction
>
> 4. no need color map function
>
> 5. you need vtk5.0
>
> Regads,
>
> Yixun Liu
>
>
>
>
>
>
>
>
>
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