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cxAlgorithmHelpers.cpp
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1 /*=========================================================================
2 This file is part of CustusX, an Image Guided Therapy Application.
3 
4 Copyright (c) 2008-2014, SINTEF Department of Medical Technology
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31 =========================================================================*/
32 #include "cxAlgorithmHelpers.h"
33 
34 #include "cxImage.h"
35 #include "cxTypeConversions.h"
36 #include "itkImageFileReader.h"
37 #include "vtkMetaImageWriter.h"
38 #include "cxSettings.h"
39 #include <QDir>
40 #include "cxUtilHelpers.h"
41 #include "cxDataLocations.h"
42 #include "cxLogger.h"
43 #include <itkGrayscaleFillholeImageFilter.h>
44 
45 namespace cx
46 {
47 
48 //---------------------------------------------------------------------------------------------------------------------
49 itkImageType::ConstPointer AlgorithmHelper::getITKfromVTKImage(vtkImageDataPtr image)
50 {
51  //HACK
52  return AlgorithmHelper::getITKfromVTKImageViaFile(image);
53 }
54 //---------------------------------------------------------------------------------------------------------------------
55 
56 itkImageType::ConstPointer AlgorithmHelper::getITKfromSSCImage(ImagePtr input)
57 {
58  if (!input)
60  else
61  return getITKfromVTKImage(input->getBaseVtkImageData());
62 }
63 //---------------------------------------------------------------------------------------------------------------------
64 
69 itkImageType::ConstPointer AlgorithmHelper::getITKfromVTKImageViaFile(vtkImageDataPtr input)
70 {
71  if(!input)
72  {
73  std::cout << "getITKfromSSCImage(): NO image!!!" << std::endl;
74  return itkImageType::ConstPointer();
75  }
76 
77  double minVal = input->GetScalarRange()[0];
78  double maxVal = input->GetScalarRange()[1];
79 
80  if(maxVal > SHRT_MAX || minVal < SHRT_MIN)
81  reportWarning("Image values out of range. max: " + qstring_cast(maxVal)
82  + " min: " + qstring_cast(minVal) + " See bug #363 if this needs to be fixed");
83 
84  QString tempFolder = DataLocations::getCachePath() + "/vtk2itk/";
85  QDir().mkpath(tempFolder);
86 
87  // write to disk
88  vtkMetaImageWriterPtr writer = vtkMetaImageWriterPtr::New();
89 
90  QString filename = tempFolder + "/"+qstring_cast(writer.GetPointer())+".mhd";
91 
92 
93  writer->SetInputData(input);
94  writer->SetFileName(cstring_cast(filename));
95  writer->SetCompression(false);
96  writer->Write();
97 
98  // read from disk
99  typedef itk::ImageFileReader<itkImageType> ReaderType;
100  ReaderType::Pointer reader = ReaderType::New();
101 #if ITK_VERSION_MAJOR==3
102  reader->SetFileName(cstring_cast(filename));
103 #else
104  reader->SetFileName(string_cast(filename));
105 #endif
106 
108 // reader->SetFileName(string_cast(filename));
109  reader->Update();
110  itkImageType::ConstPointer retval = reader->GetOutput();
111 
112  QFile(filename).remove(); // cleanup
113  QFile(changeExtension(filename, "raw")).remove(); // cleanup
114 
115  return retval;
116 }
117 //---------------------------------------------------------------------------------------------------------------------
118 
119 vtkImageDataPtr AlgorithmHelper::getVTKFromITK(itkImageType::ConstPointer input)
120 {
121  //Convert ITK to VTK
122  itkToVtkFilterType::Pointer itkToVtkFilter = itkToVtkFilterType::New();
123  itkToVtkFilter->SetInput(input);
124  itkToVtkFilter->Update();
125 
126  vtkImageDataPtr rawResult = vtkImageDataPtr::New();
127  rawResult->DeepCopy(itkToVtkFilter->GetOutput());
128  // TODO: possible memory problem here - check debug mem system of itk/vtk
129 
130  return rawResult;
131 }
132 
134 {
135  itkImageType::ConstPointer itkImage = AlgorithmHelper::getITKfromVTKImage(input);
136 
137  typedef itk::GrayscaleFillholeImageFilter<itkImageType, itkImageType> FilterType;
138  FilterType::Pointer filter = FilterType::New();
139 
140  filter->SetInput(itkImage);
141  filter->Update();
142 
143  return AlgorithmHelper::getVTKFromITK(filter->GetOutput());
144 }
145 
146 
147 }
QString qstring_cast(const T &val)
boost::shared_ptr< class Image > ImagePtr
Definition: cxDicomWidget.h:48
cstring_cast_Placeholder cstring_cast(const T &val)
std::string string_cast(const T &val)
static vtkImageDataPtr getVTKFromITK(itkImageType::ConstPointer input)
void reportWarning(QString msg)
Definition: cxLogger.cpp:91
static QString getCachePath()
return path to a folder that is used during execution, will be cleared at start and stop...
vtkSmartPointer< class vtkMetaImageWriter > vtkMetaImageWriterPtr
static itkImageType::ConstPointer getITKfromVTKImage(vtkImageDataPtr image)
QString changeExtension(QString name, QString ext)
static itkImageType::ConstPointer getITKfromSSCImage(ImagePtr image)
static vtkImageDataPtr execute_itk_GrayscaleFillholeImageFilter(vtkImageDataPtr input)
vtkSmartPointer< class vtkImageData > vtkImageDataPtr