-#ifndef _vvSegmentationDialog_CXX
-#define _vvSegmentationDialog_CXX
-
/*=========================================================================
+ Program: vv http://www.creatis.insa-lyon.fr/rio/vv
-Program: vv
-Language: C++
-Author : David Sarrut (david.sarrut@gmail.com)
-
-Copyright (C) 2008
-Léon Bérard cancer center http://oncora1.lyon.fnclcc.fr
-CREATIS-LRMN http://www.creatis.insa-lyon.fr
-
-This program is free software: you can redistribute it and/or modify
-it under the terms of the GNU General Public License as published by
-the Free Software Foundation, version 3 of the License.
+ Authors belong to:
+ - University of LYON http://www.universite-lyon.fr/
+ - Léon Bérard cancer center http://www.centreleonberard.fr
+ - CREATIS CNRS laboratory http://www.creatis.insa-lyon.fr
-This program is distributed in the hope that it will be useful,
-but WITHOUT ANY WARRANTY; without even the implied warranty of
-MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
-GNU General Public License for more details.
+ This software is distributed WITHOUT ANY WARRANTY; without even
+ the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ PURPOSE. See the copyright notices for more information.
-You should have received a copy of the GNU General Public License
-along with this program. If not, see <http://www.gnu.org/licenses/>.
+ It is distributed under dual licence
-=========================================================================*/
+ - BSD See included LICENSE.txt file
+ - CeCILL-B http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
+===========================================================================**/
+#ifndef _vvSegmentationDialog_CXX
+#define _vvSegmentationDialog_CXX
#include <QtGui>
#include <Qt>
#include "vvInteractorStyleNavigator.h"
#include "vvSlicer.h"
+#include <vtkVersion.h>
+#include <vtkStreamingDemandDrivenPipeline.h>
+#include <vtkInformation.h>
#include "vtkMarchingCubes.h"
#include "vtkMarchingSquares.h"
#include "vtkImageClip.h"
#include <vtkPolyDataWriter.h>
#include <QMessageBox>
+#include <QFileDialog>
+
+#ifdef Q_OS_OSX
+# include "vvOSXHelper.h"
+#endif
//====================================================================
vvSegmentationDialog::vvSegmentationDialog(QWidget * parent, Qt::WindowFlags f)
- :QDialog(parent,f), Ui::vvSegmentationDialog() {
-
- // initialization
- setupUi(this);
- mManager = new vvSlicerManager(1);
-
- mClipper = vtkImageClip::New();
- mSquares1 = vtkMarchingSquares::New();
- mSquaresMapper1 = vtkPolyDataMapper::New();
- mSquaresActor1 = vtkActor::New();
-
- mSquares2 = vtkMarchingSquares::New();
- mSquaresMapper2 = vtkPolyDataMapper::New();
- mSquaresActor2 = vtkActor::New();
-
- //m3DMapper = vtkPolyDataMapper::New();
- //m3DActor = vtkActor::New();
- m3DExtractor = vtkMarchingCubes::New();
- m3DMappers.clear();
- m3DActors.clear();
-
- mBinaireImages.clear();
- mKernelValue = 2;
-
- connect(clipping1Slider,SIGNAL(valueChanged(int)),this,SLOT(clippingvaluechanged(int)));
- connect(clipping2Slider,SIGNAL(valueChanged(int)),this,SLOT(clippingvaluechanged(int)));
- connect(binaryButton,SIGNAL(clicked()),this,SLOT(BinariseSurface()));
- connect(saveButton,SIGNAL(clicked()),this,SLOT(Save()));
- connect(erodeButton,SIGNAL(clicked()),this,SLOT(Erode()));
- connect(dilateButton,SIGNAL(clicked()),this,SLOT(Dilate()));
- connect(dimButton,SIGNAL(clicked()),this,SLOT(ChangeDimRendering()));
- connect(kernelSpinBox,SIGNAL(valueChanged(int)),this,SLOT(KernelValueChanged(int)));
-
- binaryButton->setEnabled(0);
- erodeButton->setEnabled(0);
- dilateButton->setEnabled(0);
- infoLabel->setText("Select Up and Down threshold before clicking binarise !");
+ :QDialog(parent,f), Ui::vvSegmentationDialog()
+{
+
+ // initialization
+ setupUi(this);
+ mManager = new vvSlicerManager(1);
+
+ mClipper = vtkImageClip::New();
+ mSquares1 = vtkMarchingSquares::New();
+ mSquaresMapper1 = vtkPolyDataMapper::New();
+ mSquaresActor1 = vtkActor::New();
+
+ mSquares2 = vtkMarchingSquares::New();
+ mSquaresMapper2 = vtkPolyDataMapper::New();
+ mSquaresActor2 = vtkActor::New();
+
+ //m3DMapper = vtkPolyDataMapper::New();
+ //m3DActor = vtkActor::New();
+ m3DExtractor = vtkMarchingCubes::New();
+ m3DExtractor->ComputeScalarsOff();
+ m3DMappers.clear();
+ m3DActors.clear();
+
+ mBinaireImages.clear();
+ mKernelValue = 2;
+
+ connect(clipping1Slider,SIGNAL(valueChanged(int)),this,SLOT(clippingvaluechanged(int)));
+ connect(clipping2Slider,SIGNAL(valueChanged(int)),this,SLOT(clippingvaluechanged(int)));
+ connect(binaryButton,SIGNAL(clicked()),this,SLOT(BinariseSurface()));
+ connect(saveButton,SIGNAL(clicked()),this,SLOT(Save()));
+ connect(erodeButton,SIGNAL(clicked()),this,SLOT(Erode()));
+ connect(dilateButton,SIGNAL(clicked()),this,SLOT(Dilate()));
+ connect(dimButton,SIGNAL(clicked()),this,SLOT(ChangeDimRendering()));
+ connect(kernelSpinBox,SIGNAL(valueChanged(int)),this,SLOT(KernelValueChanged(int)));
+
+ binaryButton->setEnabled(0);
+ erodeButton->setEnabled(0);
+ dilateButton->setEnabled(0);
+ infoLabel->setText("Select Up and Down threshold before clicking binarise !");
+
+#ifdef Q_OS_OSX
+ disableGLHiDPI(viewWidget->winId());
+#endif
}
vvSegmentationDialog::~vvSegmentationDialog()
{
- mClipper->Delete();
+ mClipper->Delete();
- mSquaresActor1->Delete();
- mSquaresMapper1->Delete();
- mSquares1->Delete();
+ mSquaresActor1->Delete();
+ mSquaresMapper1->Delete();
+ mSquares1->Delete();
- mSquaresActor2->Delete();
- mSquaresMapper2->Delete();
- mSquares2->Delete();
+ mSquaresActor2->Delete();
+ mSquaresMapper2->Delete();
+ mSquares2->Delete();
- //m3DMapper->Delete();
- //m3DActor->Delete();
- m3DExtractor->Delete();
+ //m3DMapper->Delete();
+ //m3DActor->Delete();
+ m3DExtractor->Delete();
- for (unsigned int i = 0; i < mBinaireImages.size(); i++)
- mBinaireImages[i]->Delete();
+ for (unsigned int i = 0; i < mBinaireImages.size(); i++)
+ mBinaireImages[i]->Delete();
- for (unsigned int i = 0; i < m3DActors.size(); i++)
- m3DActors[i]->Delete();
+ for (unsigned int i = 0; i < m3DActors.size(); i++)
+ m3DActors[i]->Delete();
- for (unsigned int i = 0; i < m3DMappers.size(); i++)
- m3DMappers[i]->Delete();
+ for (unsigned int i = 0; i < m3DMappers.size(); i++)
+ m3DMappers[i]->Delete();
- delete mManager;
+ delete mManager;
}
//----------------------------------------------------------------------------
void vvImageBinarize(vtkImageData *in1Data, T *in1Ptr,
int outExt[6],int clampMin, int clampMax)
{
- int idxR, idxY, idxZ;
- int maxY, maxZ;
- vtkIdType inIncX, inIncY, inIncZ;
- int rowLength;
-
- // find the region to loop over
- rowLength =
- (outExt[1] - outExt[0]+1)*in1Data->GetNumberOfScalarComponents();
- // What a pain. Maybe I should just make another filter.
-
- maxY = outExt[3] - outExt[2];
- maxZ = outExt[5] - outExt[4];
-
- // Get increments to march through data
- in1Data->GetContinuousIncrements(outExt, inIncX, inIncY, inIncZ);
-
- for (idxZ = 0; idxZ <= maxZ; idxZ++)
- {
- for (idxY = 0; idxY <= maxY; idxY++)
- {
- for (idxR = 0; idxR < rowLength; idxR++)
- {
- if (static_cast<double>(*in1Ptr) > clampMin && static_cast<double>(*in1Ptr) <= clampMax)
- *in1Ptr = static_cast<T>(1);
- else
- *in1Ptr = static_cast<T>(0);
- in1Ptr++;
- }
- in1Ptr += inIncY;
- }
- in1Ptr += inIncZ;
+ int idxR, idxY, idxZ;
+ int maxY, maxZ;
+ vtkIdType inIncX, inIncY, inIncZ;
+ int rowLength;
+
+ // find the region to loop over
+ rowLength =
+ (outExt[1] - outExt[0]+1)*in1Data->GetNumberOfScalarComponents();
+ // What a pain. Maybe I should just make another filter.
+
+ maxY = outExt[3] - outExt[2];
+ maxZ = outExt[5] - outExt[4];
+
+ // Get increments to march through data
+ in1Data->GetContinuousIncrements(outExt, inIncX, inIncY, inIncZ);
+
+ for (idxZ = 0; idxZ <= maxZ; idxZ++) {
+ for (idxY = 0; idxY <= maxY; idxY++) {
+ for (idxR = 0; idxR < rowLength; idxR++) {
+ if (static_cast<double>(*in1Ptr) > clampMin && static_cast<double>(*in1Ptr) <= clampMax)
+ *in1Ptr = static_cast<T>(1);
+ else
+ *in1Ptr = static_cast<T>(0);
+ in1Ptr++;
+ }
+ in1Ptr += inIncY;
}
+ in1Ptr += inIncZ;
+ }
}
void vvSegmentationDialog::SetImage(vvImage::Pointer image)
{
- QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
- mManager->SetImage(image);
- mManager->SetSlicerWindow(0,viewWidget->GetRenderWindow());
- vvInteractorStyleNavigator* style = vvInteractorStyleNavigator::New();
- mManager->SetInteractorStyleNavigator(0,style);
- style->Delete();
-
- double range[2];
- mManager->GetImage()->GetScalarRange(range);
- mManager->GetSlicer(0)->SetColorWindow(range[1]-range[0]);
- mManager->GetSlicer(0)->SetColorLevel((range[1]+range[0])/2);
-
- clipping1Slider->setMinimum(range[0]);
- clipping1Slider->setMaximum(range[1]);
- clipping2Slider->setMinimum(range[0]);
- clipping2Slider->setMaximum(range[1]);
- clipping1Slider->setValue(range[0]);
- clipping2Slider->setValue(range[1]);
-
- mClipper->SetInput(mManager->GetSlicer(0)->GetInput());
- mSquares1->SetValue(0,clipping1Slider->value());
- mSquares2->SetValue(0,clipping2Slider->value());
- mSquares1->SetInput(mClipper->GetOutput());
- mSquares2->SetInput(mClipper->GetOutput());
-
- mSquaresMapper1->SetInput(mSquares1->GetOutput());
- mSquaresMapper2->SetInput(mSquares2->GetOutput());
- mSquaresMapper1->ScalarVisibilityOff();
- mSquaresMapper2->ScalarVisibilityOff();
-
- mSquaresActor1->SetMapper(mSquaresMapper1);
- mSquaresActor2->SetMapper(mSquaresMapper2);
- mSquaresActor1->GetProperty()->SetColor(1.0,0,0);
- mSquaresActor2->GetProperty()->SetColor(0,0,1.0);
- mSquaresActor1->SetPickable(0);
- mSquaresActor2->SetPickable(0);
-
- mManager->GetSlicer(0)->GetRenderer()->AddActor(mSquaresActor1);
- mManager->GetSlicer(0)->GetRenderer()->AddActor(mSquaresActor2);
-
- mSquares1->Update();
- mSquares2->Update();
-
- UpdateSlice(0,mManager->GetSlicer(0)->GetSlice());
-
- connect(mManager,SIGNAL(UpdateTSlice(int,int)),this,SLOT(UpdateSlice(int, int)));
- connect(mManager,SIGNAL(UpdateSlice(int,int)),this,SLOT(UpdateSlice(int, int)));
- connect(mManager,SIGNAL(UpdateSliceRange(int,int,int,int,int)),this,SLOT(UpdateSlice(int, int)));
- connect(mManager,SIGNAL(LandmarkAdded()),this,SLOT(InsertSeed()));
- QApplication::restoreOverrideCursor();
+ QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
+ mManager->SetImage(image);
+ mManager->SetSlicerWindow(0,viewWidget->GetRenderWindow());
+ vvInteractorStyleNavigator* style = vvInteractorStyleNavigator::New();
+ mManager->SetInteractorStyleNavigator(0,style);
+ style->Delete();
+
+ double range[2];
+ mManager->GetImage()->GetScalarRange(range);
+ mManager->GetSlicer(0)->SetColorWindow(range[1]-range[0]);
+ mManager->GetSlicer(0)->SetColorLevel((range[1]+range[0])/2);
+
+ clipping1Slider->setMinimum(range[0]);
+ clipping1Slider->setMaximum(range[1]);
+ clipping2Slider->setMinimum(range[0]);
+ clipping2Slider->setMaximum(range[1]);
+ clipping1Slider->setValue(range[0]);
+ clipping2Slider->setValue(range[1]);
+
+#if VTK_MAJOR_VERSION <= 5
+ mClipper->SetInput(mManager->GetSlicer(0)->GetInput());
+#else
+ mClipper->SetInputData(mManager->GetSlicer(0)->GetInput());
+#endif
+ mSquares1->SetValue(0,clipping1Slider->value());
+ mSquares2->SetValue(0,clipping2Slider->value());
+
+#if VTK_MAJOR_VERSION <= 5
+ mSquares1->SetInput(mClipper->GetOutput());
+ mSquares2->SetInput(mClipper->GetOutput());
+
+ mSquaresMapper1->SetInput(mSquares1->GetOutput());
+ mSquaresMapper2->SetInput(mSquares2->GetOutput());
+#else
+ mSquares1->SetInputData(mClipper->GetOutput());
+ mSquares2->SetInputData(mClipper->GetOutput());
+
+ mSquaresMapper1->SetInputData(mSquares1->GetOutput());
+ mSquaresMapper2->SetInputData(mSquares2->GetOutput());
+#endif
+ mSquaresMapper1->ScalarVisibilityOff();
+ mSquaresMapper2->ScalarVisibilityOff();
+
+ mSquaresActor1->SetMapper(mSquaresMapper1);
+ mSquaresActor2->SetMapper(mSquaresMapper2);
+ mSquaresActor1->GetProperty()->SetColor(1.0,0,0);
+ mSquaresActor2->GetProperty()->SetColor(0,0,1.0);
+ mSquaresActor1->SetPickable(0);
+ mSquaresActor2->SetPickable(0);
+
+ mManager->GetSlicer(0)->GetRenderer()->AddActor(mSquaresActor1);
+ mManager->GetSlicer(0)->GetRenderer()->AddActor(mSquaresActor2);
+
+ mSquares1->Update();
+ mSquares2->Update();
+
+ UpdateSlice(0,mManager->GetSlicer(0)->GetSlice());
+
+ connect(mManager,SIGNAL(UpdateTSlice(int,int)),this,SLOT(UpdateSlice(int, int)));
+ connect(mManager,SIGNAL(UpdateSlice(int,int)),this,SLOT(UpdateSlice(int, int)));
+ connect(mManager,SIGNAL(UpdateSliceRange(int,int,int,int,int)),this,SLOT(UpdateSlice(int, int)));
+ connect(mManager,SIGNAL(LandmarkAdded()),this,SLOT(InsertSeed()));
+ QApplication::restoreOverrideCursor();
}
void vvSegmentationDialog::UpdateSlice(int slicer,int slices)
{
- int slice = mManager->GetSlicer(0)->GetSlice();
- int tslice = mManager->GetSlicer(0)->GetTSlice();
- mClipper->SetInput(mManager->GetSlicer(0)->GetInput());
- int* extent = mManager->GetSlicer(0)->GetImageActor()->GetDisplayExtent();
- mClipper->SetOutputWholeExtent(extent[0],extent[1],extent[2],extent[3],extent[4],extent[5]);
- int i;
- for (i = 0; i < 6;i = i+2)
- {
- if (extent[i] == extent[i+1])
- {
- break;
- }
+ int slice = mManager->GetSlicer(0)->GetSlice();
+ int tslice = mManager->GetSlicer(0)->GetTSlice();
+#if VTK_MAJOR_VERSION <= 5
+ mClipper->SetInput(mManager->GetSlicer(0)->GetInput());
+#else
+ mClipper->SetInputData(mManager->GetSlicer(0)->GetInput());
+#endif
+ int* extent = mManager->GetSlicer(0)->GetImageActor()->GetDisplayExtent();
+ mClipper->SetOutputWholeExtent(extent[0],extent[1],extent[2],extent[3],extent[4],extent[5]);
+ int i;
+ for (i = 0; i < 6; i = i+2) {
+ if (extent[i] == extent[i+1]) {
+ break;
}
-
- switch (i)
- {
- case 0:
- if (mManager->GetSlicer(0)->GetRenderer()->GetActiveCamera()->GetPosition()[0] > slice)
- {
- mSquaresActor1->SetPosition(1,0,0);
- mSquaresActor2->SetPosition(1,0,0);
- }
- else
- {
- mSquaresActor1->SetPosition(-1,0,0);
- mSquaresActor2->SetPosition(-1,0,0);
- }
- break;
- case 2:
- if (mManager->GetSlicer(0)->GetRenderer()->GetActiveCamera()->GetPosition()[1] > slice)
- {
- mSquaresActor1->SetPosition(0,1,0);
- mSquaresActor2->SetPosition(0,1,0);
- }
- else
- {
- mSquaresActor1->SetPosition(0,-1,0);
- mSquaresActor2->SetPosition(0,-1,0);
- }
- break;
- case 4:
- if (mManager->GetSlicer(0)->GetRenderer()->GetActiveCamera()->GetPosition()[2] > slice)
- {
- mSquaresActor1->SetPosition(0,0,1);
- mSquaresActor2->SetPosition(0,0,1);
- }
- else
- {
- mSquaresActor1->SetPosition(0,0,-1);
- mSquaresActor2->SetPosition(0,0,-1);
- }
- break;
+ }
+
+ switch (i) {
+ case 0:
+ if (mManager->GetSlicer(0)->GetRenderer()->GetActiveCamera()->GetPosition()[0] > slice) {
+ mSquaresActor1->SetPosition(1,0,0);
+ mSquaresActor2->SetPosition(1,0,0);
+ } else {
+ mSquaresActor1->SetPosition(-1,0,0);
+ mSquaresActor2->SetPosition(-1,0,0);
}
- mSquares1->Update();
- mSquares2->Update();
-
- if (m3DActors.size())
- {
- for (unsigned int i =0; i < m3DActors.size(); i++)
- {
- if (m3DActors[i]->GetVisibility())
- {
- m3DActors[i]->VisibilityOff();
- }
- }
- std::cout << "display " << tslice << " on " << m3DActors.size() << std::endl;
- m3DActors[tslice]->VisibilityOn();
+ break;
+ case 2:
+ if (mManager->GetSlicer(0)->GetRenderer()->GetActiveCamera()->GetPosition()[1] > slice) {
+ mSquaresActor1->SetPosition(0,1,0);
+ mSquaresActor2->SetPosition(0,1,0);
+ } else {
+ mSquaresActor1->SetPosition(0,-1,0);
+ mSquaresActor2->SetPosition(0,-1,0);
+ }
+ break;
+ case 4:
+ if (mManager->GetSlicer(0)->GetRenderer()->GetActiveCamera()->GetPosition()[2] > slice) {
+ mSquaresActor1->SetPosition(0,0,1);
+ mSquaresActor2->SetPosition(0,0,1);
+ } else {
+ mSquaresActor1->SetPosition(0,0,-1);
+ mSquaresActor2->SetPosition(0,0,-1);
}
+ break;
+ }
+ mSquares1->Update();
+ mSquares2->Update();
+
+ if (m3DActors.size()) {
+ for (unsigned int i =0; i < m3DActors.size(); i++) {
+ if (m3DActors[i]->GetVisibility()) {
+ m3DActors[i]->VisibilityOff();
+ }
+ }
+ std::cout << "display " << tslice << " on " << m3DActors.size() << std::endl;
+ m3DActors[tslice]->VisibilityOn();
+ }
- mManager->Render();
+ mManager->Render();
}
void vvSegmentationDialog::clippingvaluechanged(int value)
{
- binaryButton->setEnabled(1);
- int min = (clipping1Slider->value() < clipping2Slider->value() ) ?
- clipping1Slider->value():clipping2Slider->value();
- int max = (clipping1Slider->value() > clipping2Slider->value() ) ?
- clipping1Slider->value():clipping2Slider->value();
- mSquares1->SetValue(0,min);
- mSquares2->SetValue(0,max);
-
- QString textMin = "<b> Min : </b>";
- textMin += QString::number(min);
- QString textMax = "\n <b> Max : </b>";
- textMax += QString::number(max);
- minLabel->setText(textMin);
- maxLabel->setText(textMax);
-
- if (mSquares1->GetInput())
- {
- mSquares1->Update();
- mSquares2->Update();
- mManager->Render();
- }
+ binaryButton->setEnabled(1);
+ int min = (clipping1Slider->value() < clipping2Slider->value() ) ?
+ clipping1Slider->value():clipping2Slider->value();
+ int max = (clipping1Slider->value() > clipping2Slider->value() ) ?
+ clipping1Slider->value():clipping2Slider->value();
+ mSquares1->SetValue(0,min);
+ mSquares2->SetValue(0,max);
+
+ QString textMin = "<b> Min : </b>";
+ textMin += QString::number(min);
+ QString textMax = "\n <b> Max : </b>";
+ textMax += QString::number(max);
+ minLabel->setText(textMin);
+ maxLabel->setText(textMax);
+
+ if (mSquares1->GetInput()) {
+ mSquares1->Update();
+ mSquares2->Update();
+ mManager->Render();
+ }
}
void vvSegmentationDialog::BinariseSurface()
{
- infoLabel->setText("Click erode then space on desired organ !");
-
- QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
- int clampMin = (clipping1Slider->value() < clipping2Slider->value() ) ?
- clipping1Slider->value():clipping2Slider->value();
- int clampMax = (clipping1Slider->value() > clipping2Slider->value() ) ?
- clipping1Slider->value():clipping2Slider->value();
- vtkImageData* outputImage = vtkImageData::New();
-
- for (unsigned int numImage = 0; numImage < mManager->GetSlicer(0)->GetImage()->GetVTKImages().size(); numImage++)
- {
- vtkImageData* image = mManager->GetSlicer(0)->GetImage()->GetVTKImages()[numImage];
- int ext[6];
- image->GetWholeExtent(ext);
- void *in1Ptr;
- in1Ptr = image->GetScalarPointerForExtent(ext);
-
- switch (image->GetScalarType())
- {
- vtkTemplateMacro(
- vvImageBinarize(image, static_cast<VTK_TT *>(in1Ptr),
- ext,clampMin,clampMax));
- default:
- std::cerr << "Error, unknown pixel format : " << image->GetScalarTypeAsString() << std::endl;
- return;
- }
-
- outputImage->Initialize();
- outputImage->SetExtent(ext);
- outputImage->SetOrigin(image->GetOrigin());
- outputImage->SetSpacing(image->GetSpacing());
- outputImage->SetScalarTypeToUnsignedChar();
- outputImage->CopyAndCastFrom(image,ext);
- outputImage->Update();
-
- image->DeepCopy(outputImage);
- image->UpdateInformation();
- image->PropagateUpdateExtent();
-
- vtkImageData* imageBin = vtkImageData::New();
- imageBin->DeepCopy(image);
- imageBin->Update();
- mBinaireImages.push_back(imageBin);
+ infoLabel->setText("Click erode then space on desired organ !");
+
+ QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
+ int clampMin = (clipping1Slider->value() < clipping2Slider->value() ) ?
+ clipping1Slider->value():clipping2Slider->value();
+ int clampMax = (clipping1Slider->value() > clipping2Slider->value() ) ?
+ clipping1Slider->value():clipping2Slider->value();
+ vtkImageData* outputImage = vtkImageData::New();
+
+ for (unsigned int numImage = 0; numImage < mManager->GetSlicer(0)->GetImage()->GetVTKImages().size(); numImage++) {
+ vtkImageData* image = mManager->GetSlicer(0)->GetImage()->GetVTKImages()[numImage];
+ int ext[6];
+#if VTK_MAJOR_VERSION <= 5
+ image->GetWholeExtent(ext);
+#else
+ image->GetExtent(ext);
+#endif
+ void *in1Ptr;
+ in1Ptr = image->GetScalarPointerForExtent(ext);
+
+ switch (image->GetScalarType()) {
+ vtkTemplateMacro(
+ vvImageBinarize(image, static_cast<VTK_TT *>(in1Ptr),
+ ext,clampMin,clampMax));
+ default:
+ std::cerr << "Error, unknown pixel format : " << image->GetScalarTypeAsString() << std::endl;
+ return;
}
- outputImage->Delete();
- erodeButton->setEnabled(1);
- QApplication::restoreOverrideCursor();
- mManager->SetColorWindow(2);
- mManager->SetColorLevel(0.5);
- mManager->Render();
+ outputImage->Initialize();
+ outputImage->SetExtent(ext);
+ outputImage->SetOrigin(image->GetOrigin());
+ outputImage->SetSpacing(image->GetSpacing());
+#if VTK_MAJOR_VERSION <= 5
+ outputImage->SetScalarTypeToUnsignedChar();
+#else
+ outputImage->AllocateScalars(VTK_UNSIGNED_CHAR, 1);
+#endif
+ outputImage->CopyAndCastFrom(image,ext);
+#if VTK_MAJOR_VERSION <= 5
+ outputImage->Update();
+#else
+ //outputImage->Update();
+#endif
+
+ image->DeepCopy(outputImage);
+#if VTK_MAJOR_VERSION <= 5
+ image->UpdateInformation();
+ image->PropagateUpdateExtent();
+#else
+ //image->UpdateInformation();
+ //image->PropagateUpdateExtent();
+#endif
+
+ vtkImageData* imageBin = vtkImageData::New();
+ imageBin->DeepCopy(image);
+#if VTK_MAJOR_VERSION <= 5
+ imageBin->Update();
+#else
+ //imageBin->Update();
+#endif
+ mBinaireImages.push_back(imageBin);
+ }
+
+ outputImage->Delete();
+ erodeButton->setEnabled(1);
+ QApplication::restoreOverrideCursor();
+ mManager->SetColorWindow(2);
+ mManager->SetColorLevel(0.5);
+ mManager->Render();
}
void vvSegmentationDialog::Erode()
{
- QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
- vtkImageContinuousErode3D* erode = vtkImageContinuousErode3D::New();
- erode->SetKernelSize(mKernelValue,mKernelValue,mKernelValue);
- for (unsigned int numImage = 0; numImage < mManager->GetSlicer(0)->GetImage()->GetVTKImages().size(); numImage++)
- {
- vtkImageData* image = mManager->GetSlicer(0)->GetImage()->GetVTKImages()[numImage];
- erode->SetInput(image);
- erode->Update();
- image->DeepCopy(erode->GetOutput());
- image->Update();
- }
- erode->Delete();
- dilateButton->setEnabled(1);
- mManager->Render();
- QApplication::restoreOverrideCursor();
+ QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
+ vtkImageContinuousErode3D* erode = vtkImageContinuousErode3D::New();
+ erode->SetKernelSize(mKernelValue,mKernelValue,mKernelValue);
+ for (unsigned int numImage = 0; numImage < mManager->GetSlicer(0)->GetImage()->GetVTKImages().size(); numImage++) {
+ vtkImageData* image = mManager->GetSlicer(0)->GetImage()->GetVTKImages()[numImage];
+#if VTK_MAJOR_VERSION <= 5
+ erode->SetInput(image);
+ erode->Update();
+#else
+ erode->SetInputData(image);
+ //erode->Update();
+#endif
+ image->DeepCopy(erode->GetOutput());
+#if VTK_MAJOR_VERSION <= 5
+ image->Update();
+#else
+ //image->Update();
+#endif
+ }
+ erode->Delete();
+ dilateButton->setEnabled(1);
+ mManager->Render();
+ QApplication::restoreOverrideCursor();
}
void vvSegmentationDialog::Dilate()
{
- QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
- vtkImageContinuousDilate3D* dilate = vtkImageContinuousDilate3D::New();
- vtkImageLogic* And = vtkImageLogic::New();
- And->SetOperationToAnd();
- dilate->SetKernelSize(mKernelValue,mKernelValue,mKernelValue);
- for (unsigned int numImage = 0; numImage < mManager->GetSlicer(0)->GetImage()->GetVTKImages().size(); numImage++)
- {
- vtkImageData* image = mManager->GetSlicer(0)->GetImage()->GetVTKImages()[numImage];
- dilate->SetInput(image);
- vtkImageData* mask = mBinaireImages[numImage];
- And->SetInput1(dilate->GetOutput());
- And->SetInput2(mask);
- And->Update();
- image->DeepCopy(And->GetOutput());
- image->Update();
- }
- And->Delete();
- dilate->Delete();
- mManager->Render();
- QApplication::restoreOverrideCursor();
+ QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
+ vtkImageContinuousDilate3D* dilate = vtkImageContinuousDilate3D::New();
+ vtkImageLogic* And = vtkImageLogic::New();
+ And->SetOperationToAnd();
+ dilate->SetKernelSize(mKernelValue,mKernelValue,mKernelValue);
+ for (unsigned int numImage = 0; numImage < mManager->GetSlicer(0)->GetImage()->GetVTKImages().size(); numImage++) {
+ vtkImageData* image = mManager->GetSlicer(0)->GetImage()->GetVTKImages()[numImage];
+#if VTK_MAJOR_VERSION <= 5
+ dilate->SetInput(image);
+#else
+ dilate->SetInputData(image);
+#endif
+ vtkImageData* mask = mBinaireImages[numImage];
+#if VTK_MAJOR_VERSION <= 5
+ And->SetInput1(dilate->GetOutput());
+ And->SetInput2(mask);
+#else
+ And->SetInput1Data(dilate->GetOutput());
+ And->SetInput2Data(mask);
+#endif
+ And->Update();
+ image->DeepCopy(And->GetOutput());
+#if VTK_MAJOR_VERSION <= 5
+ image->Update();
+#else
+ //image->Update();
+#endif
+ }
+ And->Delete();
+ dilate->Delete();
+ mManager->Render();
+ QApplication::restoreOverrideCursor();
}
void vvSegmentationDialog::InsertSeed()
{
- QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
- int point4D[4];
- point4D[0] = mManager->GetLandmarks()->GetCoordinates(
- mManager->GetLandmarks()->GetNumberOfPoints()-1)[0];
- point4D[1] = mManager->GetLandmarks()->GetCoordinates(
- mManager->GetLandmarks()->GetNumberOfPoints()-1)[1];
- point4D[2] = mManager->GetLandmarks()->GetCoordinates(
- mManager->GetLandmarks()->GetNumberOfPoints()-1)[2];
- point4D[3] = mManager->GetLandmarks()->GetCoordinates(
- mManager->GetLandmarks()->GetNumberOfPoints()-1)[3];
-
- point4D[0] = point4D[0]/mManager->GetSlicer(0)->GetImage()->GetVTKImages()[0]->GetSpacing()[0];
- point4D[1] = point4D[1]/mManager->GetSlicer(0)->GetImage()->GetVTKImages()[0]->GetSpacing()[1];
- point4D[2] = point4D[2]/mManager->GetSlicer(0)->GetImage()->GetVTKImages()[0]->GetSpacing()[2];
-
- vtkImageSeedConnectivity* seed = vtkImageSeedConnectivity::New();
- seed->SetInputConnectValue(1);
- seed->SetOutputConnectedValue(1);
- seed->SetOutputUnconnectedValue(0);
- seed->AddSeed(point4D[0],point4D[1],point4D[2]);
-
- for (unsigned int numImage = 0; numImage < mManager->GetSlicer(0)->GetImage()->GetVTKImages().size(); numImage++)
- {
- vtkImageData* image = mManager->GetSlicer(0)->GetImage()->GetVTKImages()[numImage];
- seed->SetInput(image);
- seed->Update();
- image->DeepCopy(seed->GetOutput());
- image->Update();
- }
-
- seed->Delete();
- QApplication::restoreOverrideCursor();
+ QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
+ int point4D[4];
+ point4D[0] = mManager->GetLandmarks()->GetCoordinates(
+ mManager->GetLandmarks()->GetNumberOfPoints()-1)[0];
+ point4D[1] = mManager->GetLandmarks()->GetCoordinates(
+ mManager->GetLandmarks()->GetNumberOfPoints()-1)[1];
+ point4D[2] = mManager->GetLandmarks()->GetCoordinates(
+ mManager->GetLandmarks()->GetNumberOfPoints()-1)[2];
+ point4D[3] = mManager->GetLandmarks()->GetCoordinates(
+ mManager->GetLandmarks()->GetNumberOfPoints()-1)[3];
+
+ point4D[0] = (point4D[0]-mManager->GetSlicer(0)->GetImage()->GetVTKImages()[0]->GetOrigin()[0])/mManager->GetSlicer(0)->GetImage()->GetVTKImages()[0]->GetSpacing()[0];
+ point4D[1] = (point4D[1]-mManager->GetSlicer(0)->GetImage()->GetVTKImages()[0]->GetOrigin()[1])/mManager->GetSlicer(0)->GetImage()->GetVTKImages()[0]->GetSpacing()[1];
+ point4D[2] = (point4D[2]-mManager->GetSlicer(0)->GetImage()->GetVTKImages()[0]->GetOrigin()[2])/mManager->GetSlicer(0)->GetImage()->GetVTKImages()[0]->GetSpacing()[2];
+
+ vtkImageSeedConnectivity* seed = vtkImageSeedConnectivity::New();
+ seed->SetInputConnectValue(1);
+ seed->SetOutputConnectedValue(1);
+ seed->SetOutputUnconnectedValue(0);
+ seed->AddSeed(point4D[0],point4D[1],point4D[2]);
+
+ for (unsigned int numImage = 0; numImage < mManager->GetSlicer(0)->GetImage()->GetVTKImages().size(); numImage++) {
+ vtkImageData* image = mManager->GetSlicer(0)->GetImage()->GetVTKImages()[numImage];
+#if VTK_MAJOR_VERSION <= 5
+ seed->SetInput(image);
+#else
+ seed->SetInputData(image);
+#endif
+ seed->Update();
+ image->DeepCopy(seed->GetOutput());
+#if VTK_MAJOR_VERSION <= 5
+ image->Update();
+#else
+ //image->Update();
+#endif
+ }
+
+ seed->Delete();
+ QApplication::restoreOverrideCursor();
}
void vvSegmentationDialog::ChangeDimRendering()
{
- QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
-
- if (dimButton->text() == "3D")
- {
- if (m3DActors.size() == 0)
- {
- m3DExtractor->SetValue(0,0.5);
- for (unsigned int numImage = 0; numImage < mManager->GetSlicer(0)->GetImage()->GetVTKImages().size(); numImage++)
- {
- vtkActor* actor = vtkActor::New();
- m3DExtractor->SetInput(mManager->GetSlicer(0)->GetImage()->GetVTKImages()[numImage]);
- m3DExtractor->Update();
-
- vtkPolyDataMapper* mapper = vtkPolyDataMapper::New();
- mapper->SetInput(m3DExtractor->GetOutput());
- m3DMappers.push_back(mapper);
-
- actor->SetMapper(mapper);
- actor->GetProperty()->SetColor(1.0,0.7,0.2);
- actor->VisibilityOff();
-
- mManager->GetSlicer(0)->GetRenderer()->AddActor(actor);
- m3DActors.push_back(actor);
- }
- }
+ QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
+
+ if (dimButton->text() == "3D") {
+ if (m3DActors.size() == 0) {
+ m3DExtractor->SetValue(0,0.5);
+ for (unsigned int numImage = 0; numImage < mManager->GetSlicer(0)->GetImage()->GetVTKImages().size(); numImage++) {
+ vtkActor* actor = vtkActor::New();
+#if VTK_MAJOR_VERSION <= 5
+ m3DExtractor->SetInput(mManager->GetSlicer(0)->GetImage()->GetVTKImages()[numImage]);
+#else
+ m3DExtractor->SetInputData(mManager->GetSlicer(0)->GetImage()->GetVTKImages()[numImage]);
+#endif
+ m3DExtractor->Update();
+
+ vtkPolyDataMapper* mapper = vtkPolyDataMapper::New();
+#if VTK_MAJOR_VERSION <= 5
+ mapper->SetInput(m3DExtractor->GetOutput());
+#else
+ mapper->SetInputData(m3DExtractor->GetOutput());
+#endif
+ m3DMappers.push_back(mapper);
+
+ actor->SetMapper(mapper);
+ actor->GetProperty()->SetColor(1.0,0.7,0.2);
+ actor->VisibilityOff();
+
+ mManager->GetSlicer(0)->GetRenderer()->AddActor(actor);
+ m3DActors.push_back(actor);
+ }
+ }
- mManager->GetSlicer(0)->GetRenderer()->SetBackground(0.5,0.6,0.9);
- m3DActors[0]->VisibilityOn();
+ mManager->GetSlicer(0)->GetRenderer()->SetBackground(0.5,0.6,0.9);
+ m3DActors[0]->VisibilityOn();
- vtkInteractorStyleTrackballCamera* style = vtkInteractorStyleTrackballCamera::New();
- mManager->SetInteractorStyleNavigator(0,style);
- style->Delete();
+ vtkInteractorStyleTrackballCamera* style = vtkInteractorStyleTrackballCamera::New();
+ mManager->SetInteractorStyleNavigator(0,style);
+ style->Delete();
- mManager->GetSlicer(0)->GetImageActor()->VisibilityOff();
- mSquaresActor1->VisibilityOff();
- mSquaresActor2->VisibilityOff();
- mManager->Render();
- dimButton->setText("2D");
- }
- else
- {
- mManager->GetSlicer(0)->GetRenderer()->SetBackground(0.0,0.0,0.0);
- vvInteractorStyleNavigator* style = vvInteractorStyleNavigator::New();
- mManager->SetInteractorStyleNavigator(0,style);
- style->Delete();
-
- mManager->GetSlicer(0)->SetSliceOrientation(2);
- m3DActors[mManager->GetSlicer(0)->GetTSlice()]->VisibilityOff();
-
- mManager->GetSlicer(0)->GetImageActor()->VisibilityOn();
- mSquaresActor1->VisibilityOn();
- mSquaresActor2->VisibilityOn();
- dimButton->setText("3D");
- }
- QApplication::restoreOverrideCursor();
+ mManager->GetSlicer(0)->GetImageActor()->VisibilityOff();
+ mSquaresActor1->VisibilityOff();
+ mSquaresActor2->VisibilityOff();
+ mManager->Render();
+ dimButton->setText("2D");
+ } else {
+ mManager->GetSlicer(0)->GetRenderer()->SetBackground(0.0,0.0,0.0);
+ vvInteractorStyleNavigator* style = vvInteractorStyleNavigator::New();
+ mManager->SetInteractorStyleNavigator(0,style);
+ style->Delete();
+
+ mManager->GetSlicer(0)->SetSliceOrientation(2);
+ m3DActors[mManager->GetSlicer(0)->GetTSlice()]->VisibilityOff();
+
+ mManager->GetSlicer(0)->GetImageActor()->VisibilityOn();
+ mSquaresActor1->VisibilityOn();
+ mSquaresActor2->VisibilityOn();
+ dimButton->setText("3D");
+ }
+ QApplication::restoreOverrideCursor();
}
void vvSegmentationDialog::KernelValueChanged(int kernel)
{
- mKernelValue = kernel;
+ mKernelValue = kernel;
}
void vvSegmentationDialog::Save()
{
- if (dimButton->text() == "2D") //If in *3D* mode, save the mesh
- {
- QString fileName = QFileDialog::getSaveFileName(this,
- tr("Save Mesh As"),
- QDir::home().dirName(),
- "Mesh Files (*.vtk *.vtp)");
- if (!fileName.isEmpty())
- {
- vtkSmartPointer<vtkPolyDataWriter> w = vtkSmartPointer<vtkPolyDataWriter>::New();
- w->SetInput(m3DExtractor->GetOutput());
- w->SetFileName(fileName.toStdString().c_str());
- w->Write();
- }
+ if (dimButton->text() == "2D") { //If in *3D* mode, save the mesh
+ QString fileName = QFileDialog::getSaveFileName(this,
+ tr("Save Mesh As"),
+ QDir::home().dirName(),
+ "Mesh Files (*.vtk *.vtp)");
+ if (!fileName.isEmpty()) {
+ vtkSmartPointer<vtkPolyDataWriter> w = vtkSmartPointer<vtkPolyDataWriter>::New();
+#if VTK_MAJOR_VERSION <= 5
+ w->SetInput(m3DExtractor->GetOutput());
+#else
+ w->SetInputData(m3DExtractor->GetOutput());
+#endif
+ w->SetFileName(fileName.toStdString().c_str());
+ w->Write();
}
- else {
- QStringList OutputListeFormat;
- OutputListeFormat.clear();
- int dimension = mManager->GetDimension();
- if (dimension == 1)
- {
- OutputListeFormat.push_back(".mhd");
- }
- if (dimension == 2)
- {
- OutputListeFormat.push_back(".bmp");
- OutputListeFormat.push_back(".png");
- OutputListeFormat.push_back(".jpeg");
- OutputListeFormat.push_back(".tif");
- OutputListeFormat.push_back(".mhd");
- OutputListeFormat.push_back(".hdr");
- OutputListeFormat.push_back(".vox");
- }
- else if (dimension == 3)
- {
- OutputListeFormat.push_back(".mhd");
- OutputListeFormat.push_back(".hdr");
- OutputListeFormat.push_back(".vox");
- }
- else if (dimension == 4)
- {
- OutputListeFormat.push_back(".mhd");
- }
- QString Extensions = "AllFiles(*.*)";
- for (int i = 0; i < OutputListeFormat.count(); i++)
- {
- Extensions += ";;Images ( *";
- Extensions += OutputListeFormat[i];
- Extensions += ")";
- }
- QString fileName = QFileDialog::getSaveFileName(this,
- tr("Save As"),
- QDir::home().dirName(),
- Extensions);
- if (!fileName.isEmpty())
- {
- std::string fileformat = vtksys::SystemTools::GetFilenameLastExtension(fileName.toStdString());
- if (OutputListeFormat.contains(
- fileformat.c_str()))
- {
- QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
- vvProgressDialog progress("Saving "+fileName.toStdString());
- qApp->processEvents();
- vvImageWriter *writer = new vvImageWriter;
- writer->SetOutputFileName(fileName.toStdString());
- writer->SetInput(mManager->GetSlicer(0)->GetImage());
- writer->Update(dimension,"unsigned_char");
- QApplication::restoreOverrideCursor();
- if (writer->GetLastError().size())
- {
- QString error = "Saving did not succeed\n";
- error += writer->GetLastError().c_str();
- QMessageBox::information(this,tr("Saving Problem"),error);
- Save();
- }
- }
- else
- {
- QString error = fileformat.c_str();
- if (error.isEmpty())
- error += "no file format specified !";
- else
- error += " format unknown !!!\n";
- QMessageBox::information(this,tr("Saving Problem"),error);
- Save();
- }
+ } else {
+ QStringList OutputListeFormat;
+ OutputListeFormat.clear();
+ int dimension = mManager->GetDimension();
+ if (dimension == 1) {
+ OutputListeFormat.push_back(".mhd");
+ OutputListeFormat.push_back(".mha");
+ }
+ if (dimension == 2) {
+ OutputListeFormat.push_back(".bmp");
+ OutputListeFormat.push_back(".png");
+ OutputListeFormat.push_back(".jpeg");
+ OutputListeFormat.push_back(".tif");
+ OutputListeFormat.push_back(".mha");
+ OutputListeFormat.push_back(".mhd");
+ OutputListeFormat.push_back(".hdr");
+ OutputListeFormat.push_back(".vox");
+ } else if (dimension == 3) {
+ OutputListeFormat.push_back(".mha");
+ OutputListeFormat.push_back(".mhd");
+ OutputListeFormat.push_back(".hdr");
+ OutputListeFormat.push_back(".vox");
+ } else if (dimension == 4) {
+ OutputListeFormat.push_back(".mha");
+ OutputListeFormat.push_back(".mhd");
+ }
+ QString Extensions = "AllFiles(*.*)";
+ for (int i = 0; i < OutputListeFormat.count(); i++) {
+ Extensions += ";;Images ( *";
+ Extensions += OutputListeFormat[i];
+ Extensions += ")";
+ }
+ QString fileName = QFileDialog::getSaveFileName(this,
+ tr("Save As"),
+ QDir::home().dirName(),
+ Extensions);
+ if (!fileName.isEmpty()) {
+ std::string fileformat = vtksys::SystemTools::GetFilenameLastExtension(fileName.toStdString());
+ if (OutputListeFormat.contains(
+ fileformat.c_str())) {
+ QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
+ vvProgressDialog progress("Saving "+fileName.toStdString());
+ qApp->processEvents();
+ vvImageWriter::Pointer writer = vvImageWriter::New();
+ writer->SetOutputFileName(fileName.toStdString());
+ writer->SetInput(mManager->GetSlicer(0)->GetImage());
+ writer->Update(dimension,"unsigned_char");
+ QApplication::restoreOverrideCursor();
+ if (writer->GetLastError().size()) {
+ QString error = "Saving did not succeed\n";
+ error += writer->GetLastError().c_str();
+ QMessageBox::information(this,tr("Saving Problem"),error);
+ Save();
}
+ } else {
+ QString error = fileformat.c_str();
+ if (error.isEmpty())
+ error += "no file format specified !";
+ else
+ error += " format unknown !!!\n";
+ QMessageBox::information(this,tr("Saving Problem"),error);
+ Save();
+ }
}
+ }
}
#endif /* end #define _vvSegmentationDialog_CXX */
git://git.creatis.insa-lyon.fr / clitk.git / blobdiff