<HTML><BODY>Thank you for your help, now with CMakeLists.txt it works. <br><br>I have one question more:<br>Is it possible to save loaded DICOM-Series (after a thresholdfilter for example) to a SQLDatabase<br>and load it from the database again?<br><br>Thu, 8 May 2014 10:57:24 +0200 от Dženan Zukić <dzenanz@gmail.com>:<br>
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<div id="style_13995394680000000018_BODY"><div dir="ltr"><div style="font-family:verdana,sans-serif;font-size:small">Below code runs without problems on my system (the last delete() was crashing it after closing). Screenshot is attached. Dataset in question is here:</div>
<div><font face="verdana, sans-serif"><a href="http://www.cg.informatik.uni-siegen.de/data/Downloads/DzZ.zip" target="_blank">http://www.cg.informatik.uni-siegen.de/data/Downloads/DzZ.zip</a></font><br></div>
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<font face="verdana, sans-serif"><br></font></div><div><font face="verdana, sans-serif">Problem with your .pro file is lack of itkImageToVTKImageFilter in either include path or libs. With such a simple "project" you can easily switch to <a href="http://www.cmake.org/Wiki/CMake/Tutorials/Qt" target="_blank">CMake</a>.</font></div>
<div><font face="verdana, sans-serif"><br></font></div><div><font face="verdana, sans-serif"><div>#include <itkImageFileReader.h></div><div>
#include <itkGDCMImageIO.h></div><div>#include <vtkSmartPointer.h></div><div>#include <vtkRenderWindow.h></div><div>#include <vtkRenderer.h></div>
<div>#include <vtkRenderWindowInteractor.h></div><div>#include <itkImageToVTKImageFilter.h></div><div>#include <vtkImageViewer.h></div><div>
#include <itkImageSeriesReader.h></div><div>#include <itkGDCMSeriesFileNames.h></div><div><br></div><div>void main()</div><div>
{</div><div> typedef itk::Image<unsigned char, 3> VisualizingImageType;</div><div> typedef itk::Image<unsigned char, 3> ImageType;</div><div>
typedef itk::ImageSeriesReader< ImageType > ReaderType;</div><div><br></div><div> ReaderType::Pointer reader = ReaderType::New();</div><div>
typedef itk::GDCMImageIO ImageIOType;</div>
<div> ImageIOType::Pointer dicomIO = ImageIOType::New();</div><div> reader->SetImageIO(dicomIO);</div><div><br></div><div> typedef itk::GDCMSeriesFileNames NamesGeneratorType;</div>
<div> NamesGeneratorType::Pointer nameGenerator = NamesGeneratorType::New();</div><div> nameGenerator->SetDirectory("D:/Repo/Data/Zukic/DzZ_1189252");</div><div>
<br></div><div><br></div><div> // get series IDs</div><div> typedef std::vector<std::string> SeriesIdContainer;</div><div>
const SeriesIdContainer &seriesUID = nameGenerator->GetSeriesUIDs();</div><div><br></div><div> // get dicom series</div><div> typedef std::vector<std::string> FileNamesContainer;</div>
<div> FileNamesContainer fileName;</div><div> fileName=nameGenerator->GetFileNames(seriesUID.begin()->c_str());</div><div> reader->SetFileNames(fileName);</div>
<div><br></div><div> // pull reader</div><div> reader->Update();</div><div> reader->GetOutput()->Print(std::cout);</div>
<div><br></div><div> vtkSmartPointer<vtkRenderWindow> renWin = vtkSmartPointer<vtkRenderWindow>::New();</div><div> vtkSmartPointer<vtkRenderer> ren1 = vtkSmartPointer<vtkRenderer>::New();</div>
<div> ren1->SetBackground(0.5f,0.5f,1.0f);</div><div><br></div><div> renWin->AddRenderer(ren1);</div><div> renWin->SetSize(1280,1024);</div>
<div> vtkSmartPointer<vtkRenderWindowInteractor> iren =</div><div> vtkSmartPointer<vtkRenderWindowInteractor>::New();</div><div> iren->SetRenderWindow(renWin);</div>
<div> renWin->Render(); // make sure we have an OpenGL context.</div><div><br></div><div> typedef itk::ImageToVTKImageFilter<VisualizingImageType> itkVtkConverter;</div>
<div> itkVtkConverter::Pointer conv=itkVtkConverter::New();</div><div> conv->GetExporter()->SetInput(reader->GetOutput());</div><div> conv->GetImporter()->Update();</div>
<div> conv->GetImporter()->GetOutput()->Print(std::cout);</div><div><br></div><div> vtkImageViewer * viewer =vtkImageViewer::New();</div><div>
vtkRenderWindowInteractor * renderWindowInteractor =</div><div> vtkRenderWindowInteractor::New();</div><div> viewer->SetupInteractor( renderWindowInteractor );</div>
<div> viewer->SetInputData( conv->GetImporter()->GetOutput() );</div><div> viewer->SetZSlice( 0 ); // <-- Slice selection</div><div> viewer->Render();</div>
<div> renderWindowInteractor->Start();</div><div><br></div><div> viewer->Delete();</div><div> renderWindowInteractor->Delete();</div>
<div> //conv->GetImporter()->Delete(); //causes error due to unnecessary Delete</div><div>}</div></font></div><div><font face="verdana, sans-serif"><br>
</font></div></div><div><br><br><div>On Thu, May 8, 2014 at 10:19 AM, Роман Глуховский <span dir="ltr"><<a href="/compose/?mailto=mailto%3aroman_glu@mail.ru" target="_blank">roman_glu@mail.ru</a>></span> wrote:<br>
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<div>Hi,<br><br>I build the libraries agian. the examples works now. <br><br>But i get the same error again in my programm. <br><br><br>Here is my pro-file, maybe here is something wrong:<br><br>#-------------------------------------------------<br>
#<br># Project created by QtCreator 2014-05-07T17:08:03<br>#<br>#-------------------------------------------------<br><br>QT += core gui<br><br>greaterThan(QT_MAJOR_VERSION, 4): QT += widgets<br><br>TARGET = test<br>
TEMPLATE = app<br><br>INCLUDEPATH+= /usr/local/include/ITK-4.5\<br>/usr/local/include/vtk-6.1<br>DEPENDPATH+=/usr/local/include/ITK-4.5\<br>/usr/local/include/vtk-6.1<br>LIBS += -L/usr/local/lib/\<br>#-lITKBiasCorrection-4.5\<br>
-lITKBioCell-4.5\<br>-lITKCommon-4.5\<br>-lITKDICOMParser-4.5\<br>-litkdouble-conversion-4.5\<br>-lITKEXPAT-4.5\<br>-ITKFEM-4.5\<br>-litkgdcmCommon-4.5\<br>-litkgdcmDICT-4.5\<br>-litkgdcmDSED-4.5\<br>-litkgdcmIOD-4.5\<br>
-litkgdcmjpeg8-4.5\<br>-litkgdcmjpeg12-4.5\<br>-litkgdcmjpeg16-4.5\<br>-litkgdcmMSFF-4.5\<br>-litkgdcmuuid-4.5\<br>-lITKgiftiio-4.5\<br>-litkhdf5_cpp-4.5\<br>-litkhdf5-4.5\<br>-lITKIOBioRad-4.5\<br>-lITKIOBMP-4.5\<br>-lITKIOCSV-4.5\<br>
-lITKIOGDCM-4.5\<br>-lITKIOGE-4.5\<br>-lITKIOGIPL-4.5\<br>-lITKIOHDF5-4.5\<br>-lITKIOImageBase-4.5\<br>-lITKIOIPL-4.5\<br>-lITKIOJPEG-4.5\<br>-lITKIOLSM-4.5\<br>-lITKIOMesh-4.5\<br>-lITKIOMeta-4.5\<br>-lITKIONIFTI-4.5\<br>
-lITKIONRRD-4.5\<br>-lITKIOPNG-4.5\<br>-lITKIOSiemens-4.5\<br>-lITKIOSpatialObjects-4.5\<br>-lITKIOStimulate-4.5\<br>-lITKIOTIFF-4.5\<br>-lITKIOTransformBase-4.5\<br>-lITKIOTransformHDF5-4.5\<br>-lITKIOTransformInsightLegacy-4.5\<br>
-lITKIOTransformMatlab-4.5\<br>-lITKIOVTK-4.5\<br>-lITKIOXML-4.5\<br>-litkjpeg-4.5\<br>-lITKKLMRegionGrowing-4.5\<br>-lITKLabelMap-4.5\<br>-lITKMesh-4.5\<br>-lITKMetaIO-4.5\<br>-litkNetlibSlatec-4.5\<br>-lITKniftiio-4.5\<br>
-lITKNrrdIO-4.5\<br>-litkopenjpeg-4.5\<br>-lITKOptimizers-4.5\<br>#-lITKOptimizersv4-4.5\<br>-lITKPath-4.5\<br>-litkpng-4.5\<br>-lITKPolynomials-4.5\<br>-lITKQuadEdgeMesh-4.5\<br>#-lITKReview-4.5\<br>-lITKSpatialObjects-4.5\<br>
-lITKStatistics-4.5\<br>-litksys-4.5\<br>-litktiff-4.5\<br>-litkv3p_lsqr-4.5\<br>-litkv3p_netlib-4.5\<br>-litkvcl-4.5\<br>-lITKVideoCore-4.5\<br>-lITKVideoIO-4.5\<br>-litkvnl_algo-4.5\<br>-litkvnl-4.5\<br>-lITKVNLInstantiation-4.5\<br>
-lITKVTK-4.5\<br>-lITKWatersheds-4.5\<br>-litkzlib-4.5\<br>-lITKznz-4.5\<br>#-lvtkIOLSDyna<br> <br>LIBS += -L/usr/local/lib/vtk-6.1/\<br>#-lMapReduceMPI\<br>#-lmpistubs-6.1\<br>-lQVTK\<br>-lvtkalglib\<br>-lvtkCharts\<br>
-lvtkCommon\<br>
-lvtkDICOMParser\<br>-lvtkexoIIc\<br>-lvtkexpat-6.1\<br>-lvtkFiltering\<br>-lvtkfreetype-6.1\<br>-lvtkftgl\<br>-lvtkGenericFiltering\<br>-lvtkGeovis\<br>-lvtkGraphics\<br>-lvtkhdf5_hl-6.1\<br>-lvtkhdf5-6.1\<br>-lvtkHybrid\<br>
-lvtkImaging\<br>-lvtkInfovis\<br>-lvtkIO\<br>-lvtkjpeg-6.1\<br>-lvtklibxml2-6.1\<br>-lvtkmetaio\<br>-lvtkNetCDF_cxx-6.1\<br>-lvtkNetCDF-6.1\<br>-lvtkpng-6.1\<br>-lvtkproj4\<br>-lvtkRendering\<br>-lvtksqlite-6.1\<br>-lvtksys\<br>
-lvtktiff-6.1\<br>-lvtkverdict\<br>-lvtkViews\<br>-lvtkVolumeRendering\<br>-lvtkWidgets\<br>-lvtkzlib-6.1<br><br>SOURCES += main.cpp\<br> mainwindow.cpp<br><br>HEADERS += mainwindow.h<br><br>FORMS += mainwindow.ui.<br>
<br><br><br>Tue, 29 Apr 2014 13:48:33 +0200 от Dženan Zukić <<a href="/compose/?mailto=mailto%3adzenanz@gmail.com" target="_blank">dzenanz@gmail.com</a>>:<div><div><br>
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<div><div dir="ltr"><div style="font-family:verdana,sans-serif;font-size:small">You could try that, definitely. Using static libraries instead of dynamic can save you some headaches.</div></div><div>
<br><br><div>On Tue, Apr 29, 2014 at 1:45 PM, Роман Глуховский <span dir="ltr"><<a href="https://e.mail.ru/compose/?mailto=mailto%3aroman_glu@mail.ru" target="_blank">roman_glu@mail.ru</a>></span> wrote:<br><blockquote style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
<div>it could be that i have some problems with the libraries.<br><br>should i compile and build ITK and VTK again?<br><br><br><br>Tue, 29 Apr 2014 13:14:29 +0200 от Dženan Zukić <<a href="https://e.mail.ru/compose/?mailto=mailto%3adzenanz@gmail.com" target="_blank">dzenanz@gmail.com</a>>:<div>
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<div><div dir="ltr"><div style="font-family:verdana,sans-serif;font-size:small">Then you most likely have some problems with how libraries are compiled/built. Can you successfully run examples that come with ITK and VTK libraries? If not, you first need to take care of those issues.</div>
</div><div><br><br><div>On Tue, Apr 29, 2014 at 1:01 PM, Роман Глуховский <span dir="ltr"><<a href="https://e.mail.ru/compose/?mailto=mailto%3aroman_glu@mail.ru" target="_blank">roman_glu@mail.ru</a>></span> wrote:<br>
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<div>I try this example, but i get also a segmentation fault<br><br><br>Tue, 29 Apr 2014 12:04:45 +0200 от Dženan Zukić <<a href="https://e.mail.ru/compose/?mailto=mailto%3adzenanz@gmail.com" target="_blank">dzenanz@gmail.com</a>>:<div>
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<div><div dir="ltr"><div style="font-family:verdana,sans-serif;font-size:small">Have you seen this example?</div><div><font face="verdana, sans-serif"><a href="http://vtk.org/Wiki/VTK/ExamplesBoneYard/Cxx/VolumeRendering/itkVtkImageConvert" target="_blank">http://vtk.org/Wiki/VTK/ExamplesBoneYard/Cxx/VolumeRendering/itkVtkImageConvert</a></font><br>
</div></div><div><br><br><div>On Tue, Apr 29, 2014 at 10:45 AM, Роман Глуховский <span dir="ltr"><<a href="https://e.mail.ru/compose/?mailto=mailto%3aroman_glu@mail.ru" target="_blank">roman_glu@mail.ru</a>></span> wrote:<br>
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I change the part of my programm to load the ImageSeries,<br></div></div><div><div><div><div><div><br> typedef itk::Image<unsigned char, 3> ImageType;<br> typedef itk::ImageSeriesReader< ImageType > ReaderType;<br>
ReaderType::Pointer reader = ReaderType::New();<br> typedef itk::GDCMImageIO ImageIOType;<br> ImageIOType::Pointer dicomIO = ImageIOType::New();<br> reader->SetImageIO(dicomIO);<br><br> typedef itk::GDCMSeriesFileNames NamesGeneratorType;<br>
NamesGeneratorType::Pointer nameGenerator = NamesGeneratorType::New();<br> nameGenerator->SetDirectory("Folder");<br><br><br> // get series IDs<br> typedef std::vector<std::string> SeriesIdContainer;<br>
const SeriesIdContainer &seriesUID = nameGenerator->GetSeriesUIDs();<br><br> // get dicom series<br> typedef std::vector<std::string> FileNamesContainer;<br> FileNamesContainer fileName;<br> fileName=nameGenerator->GetFileNames(seriesUID.begin()->c_str());<br>
reader->SetFileNames(fileName);<br><br> // pull reader<br> reader->Update();<br><br>But my programm crash again at the same position, when i try to convert to vtk.<br><br><br>Sat, 26 Apr 2014 07:12:55 +0800 (CST) от 关红彦 <<a href="https://e.mail.ru/compose/?mailto=mailto%3aghy@tellyes.com" target="_blank">ghy@tellyes.com</a>>:<br>
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<div><div style="line-height:1.7;font-size:14px;font-family:arial"><br><br>I just wonder if your 3D medical images save as a file or a series of images.<div>If you save them to a series of files, you shouldn't do this: </div>
<div style="color:rgb(255,0,0)"><span style="color:rgb(255,0,0)"> </span><span style="font-family:monospace;font-size:12px;line-height:22px;color:rgb(255,0,0)">#include <</span><a href="http://www.itk.org/Doxygen45/html/itkImageFileReader_8h_source.html" style="color:rgb(255,0,0);font-weight:bold;text-decoration:none;font-family:monospace;font-size:12px;line-height:22px" target="_blank">itkImageFileReader.h</a><span style="font-family:monospace;font-size:12px;line-height:22px;color:rgb(255,0,0)">></span></div>
<div><span style="color:rgb(255,0,0)">reader->SetFileName( "DICOM-File" );</span> <span style="color:rgb(255,0,0)"></span></div><div><font color="#ff0000"><br></font></div><div><font color="#ff0000">but this:</font></div>
<div><span style="font-family:monospace;font-size:12px;line-height:22px"></span><span style="color:rgb(0,0,255)"><span style="font-family:monospace;font-size:12px;line-height:22px;color:rgb(0,0,255)">#include <</span><a href="http://www.itk.org/Doxygen45/html/itkImageSeriesReader_8h_source.html" style="color:rgb(0,0,255);font-weight:bold;text-decoration:none;font-family:monospace;font-size:12px;line-height:22px" target="_blank">itkImageSeriesReader.h</a><span style="font-family:monospace;font-size:12px;line-height:22px;color:rgb(0,0,255)">></span><span style="color:rgb(0,0,255)"> </span><font color="#ff0000"><br>
</font><table class="mceItemTable" style="font-size:12px;line-height:22px;font-family:'Lucida Grande',Verdana,Geneva,Arial,sans-serif;border-spacing:0px;padding:0px;color:rgb(0,0,0);text-align:start"><tbody><tr><td style="background-color:rgb(249,250,252);border:none;margin:4px;padding:1px 0px 0px 8px;white-space:nowrap;color:rgb(0,0,255)" align="right" valign="top">
void </td><td style="background-color:rgb(249,250,252);border:none;margin:4px;padding:1px 0px 0px 8px;width:1607px" valign="bottom"><a href="http://www.itk.org/Doxygen45/html/classitk_1_1ImageSeriesReader.html#aedb3ea58c4bb4975f46ef9c85a855aa6" style="color:rgb(0,0,255);font-weight:bold;text-decoration:none" target="_blank">SetFileNames</a><span style="color:rgb(0,0,255)"> (const </span><a href="http://www.itk.org/Doxygen45/html/classitk_1_1ImageSeriesReader.html#a2efd0b86373c161229f7984b9ea4af56" style="color:rgb(0,0,255);font-weight:bold;text-decoration:none" target="_blank">FileNamesContainer</a><span style="color:rgb(0,0,255)"> &name)</span></td>
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</td></tr></tbody></table>This class can read a series of *.DCM files that are using a lot in the hospital.<br><div><br></div><br>At 2014-04-25 20:52:20,"Роман Глуховский" <<a href="https://e.mail.ru/compose/?mailto=mailto%3aroman_glu@mail.ru" target="_blank">roman_glu@mail.ru</a>> wrote:<br>
<blockquote style="padding-left:1ex;margin:0px 0px 0px 0.8ex;border-left:#ccc 1px solid">Hi vtkusers,<br><br>i load a DICOM-file with itk and after that i would like to display the file with vtk. <br><br>If I compile the programm I have no error. When i start the programm, its crashed and <br>
i get a return value "0".<br><br>In the debug-mode i get a "segmentation fault" and the programm stops at this position<br><br>----------> m_Importer->SetPropagateUpdateExtentCallback(m_Exporter->GetPropagateUpdateExtentCallback());<br>
<br>in the "itkImageToVTKImageFilter_hxx". <br><br>Here is my code:<br><br> typedef itk::Image<unsigned char, 3> VisualizingImageType;<br> typedef itk::ImageFileReader< VisualizingImageType > ReaderType;<br>
ReaderType::Pointer reader = ReaderType::New();<br> reader->SetFileName( "DICOM-File" );<br> typedef itk::GDCMImageIO ImageIOType;<br><br> ImageIOType::Pointer gdcmImageIO = ImageIOType::New();<br>
<br> reader->SetImageIO( gdcmImageIO );<br> reader->Update();<br> reader->GetOutput()->Print(std::cout);<br><br> vtkSmartPointer<vtkRenderWindow> renWin = vtkSmartPointer<vtkRenderWindow>::New();<br>
vtkSmartPointer<vtkRenderer> ren1 = vtkSmartPointer<vtkRenderer>::New();<br> ren1->SetBackground(0.5f,0.5f,1.0f);<br><br> renWin->AddRenderer(ren1);<br> renWin->SetSize(1280,1024);<br>
vtkSmartPointer<vtkRenderWindowInteractor> iren =<br> vtkSmartPointer<vtkRenderWindowInteractor>::New();<br> iren->SetRenderWindow(renWin);<br> renWin->Render(); // make sure we have an OpenGL context.<br>
<br> typedef itk::ImageToVTKImageFilter<VisualizingImageType> itkVtkConverter;<br> itkVtkConverter::Pointer conv=itkVtkConverter::New();<br> conv->GetExporter()->SetInput(reader->GetOutput());<br>
conv->GetImporter()->Update();<br> conv->GetImporter()->GetOutput()->Print(std::cout);<br><br> vtkImageViewer * viewer =vtkImageViewer::New();<br> vtkRenderWindowInteractor * renderWindowInteractor =<br>
vtkRenderWindowInteractor::New();<br> viewer->SetupInteractor( renderWindowInteractor );<br> viewer->SetInputData( conv->GetImporter()->GetOutput() );<br> viewer->SetZSlice( 0 ); // <-- Slice selection<br>
viewer->Render();<br> renderWindowInteractor->Start();<br><br> viewer->Delete();<br> renderWindowInteractor->Delete();<br> conv->GetImporter()->Delete();<br><br><br>Thank you for your help<br>
<br>Roman<br>
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