WRAP_GGO(clitkBinarizeImage_GGO_C clitkBinarizeImage.ggo)
add_library(clitkBinarizeImageLib clitkBinarizeImageGenericFilter.cxx ${clitkBinarizeImage_GGO_C})
+WRAP_GGO(clitkProfileImage_GGO_C clitkProfileImage.ggo)
+add_library(clitkProfileImageLib clitkProfileImageGenericFilter.cxx ${clitkProfileImage_GGO_C})
+
WRAP_GGO(clitkImageArithm_GGO_C clitkImageArithm.ggo)
add_library(clitkImageArithmImageLib clitkImageArithmGenericFilter.cxx ${clitkImageArithm_GGO_C})
add_executable(clitkBinarizeImage clitkBinarizeImage.cxx)
target_link_libraries(clitkBinarizeImage clitkBinarizeImageLib clitkCommon)
set(TOOLS_INSTALL ${TOOLS_INSTALL} clitkBinarizeImage)
+
+ add_executable(clitkProfileImage clitkProfileImage.cxx)
+ target_link_libraries(clitkProfileImage clitkProfileImageLib clitkCommon)
+ set(TOOLS_INSTALL ${TOOLS_INSTALL} clitkProfileImage)
WRAP_GGO(clitkVFResample_GGO_C clitkVFResample.ggo)
add_executable(clitkVFResample clitkVFResample.cxx clitkVFResampleGenericFilter.cxx ${clitkVFResample_GGO_C})
--- /dev/null
+/*=========================================================================
+ Program: vv http://www.creatis.insa-lyon.fr/rio/vv
+
+ 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 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.
+
+ 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
+===========================================================================**/
+
+// clitk
+#include "clitkProfileImage_ggo.h"
+#include "clitkProfileImageGenericFilter.h"
+
+//--------------------------------------------------------------------
+int main(int argc, char * argv[])
+{
+
+ // Init command line
+ GGO(clitkProfileImage, args_info);
+ CLITK_INIT;
+
+ // Filter
+ typedef clitk::ProfileImageGenericFilter FilterType;
+ FilterType::Pointer filter = FilterType::New();
+
+ filter->SetArgsInfo(args_info);
+
+ CLITK_TRY_CATCH_EXIT(filter->Update());
+
+ return EXIT_SUCCESS;
+} // This is the end, my friend
+//--------------------------------------------------------------------
--- /dev/null
+#File clitkProfileImage.ggo
+package "clitkProfileImage"
+version "1.0"
+purpose ""
+
+option "config" - "Config file" string no
+option "verbose" v "Verbose" flag off
+option "imagetypes" - "Display allowed image types" flag off
+
+option "input" i "Input image filename" string yes
+option "output" o "Output image filename" string yes
+option "lower" l "Lower intensity (default=min), fg is greater than this value" double no
+option "upper" u "Upper intensity (default=max), fg is lower than this value" double no
+
+option "fg" - "Foreground (FG) or 'inside' value" double no default="1"
+option "bg" - "Background (BG) or 'ouside' value" double no default="0"
+option "mode" - "Use FG and/or BG values (if FG, the BG is replaced by the input image values)" values="FG","BG","both" no default="both"
+
+
--- /dev/null
+/*=========================================================================
+ Program: vv http://www.creatis.insa-lyon.fr/rio/vv
+
+ 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 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.
+
+ 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 clitkProfileImageGenericFilter_cxx
+#define clitkProfileImageGenericFilter_cxx
+
+/* =================================================
+ * @file clitkProfileImageGenericFilter.cxx
+ * @author Thomas Baudier <thomas.baudier@creatis.insa-lyon.fr>
+ * @date 22 dec 2015
+ *
+ * @brief
+ *
+ ===================================================*/
+
+#include "clitkProfileImageGenericFilter.h"
+
+// itk include
+#include "itkBinaryThresholdImageFilter.h"
+#include "itkMaskImageFilter.h"
+#include "itkMaskNegatedImageFilter.h"
+
+#include <clitkCommon.h>
+
+namespace clitk
+{
+
+//--------------------------------------------------------------------
+ProfileImageGenericFilter::ProfileImageGenericFilter():
+ ImageToImageGenericFilter<Self>("ProfileImage")
+{
+ InitializeImageType<2>();
+ InitializeImageType<3>();
+ InitializeImageType<4>();
+}
+//--------------------------------------------------------------------
+
+
+//--------------------------------------------------------------------
+template<unsigned int Dim>
+void ProfileImageGenericFilter::InitializeImageType()
+{
+ ADD_DEFAULT_IMAGE_TYPES(Dim);
+}
+//--------------------------------------------------------------------
+
+
+//--------------------------------------------------------------------
+void ProfileImageGenericFilter::SetArgsInfo(const args_info_type & a)
+{
+ mArgsInfo=a;
+ if (mArgsInfo.verbose_given)
+ SetIOVerbose(mArgsInfo.verbose_flag);
+ if (mArgsInfo.imagetypes_given && mArgsInfo.imagetypes_flag)
+ this->PrintAvailableImageTypes();
+
+ if (mArgsInfo.input_given) {
+ SetInputFilename(mArgsInfo.input_arg);
+ }
+ if (mArgsInfo.output_given) {
+ SetOutputFilename(mArgsInfo.output_arg);
+ }
+}
+//--------------------------------------------------------------------
+
+
+//--------------------------------------------------------------------
+// Update with the number of dimensions and the pixeltype
+//--------------------------------------------------------------------
+template<class InputImageType>
+void
+ProfileImageGenericFilter::UpdateWithInputImageType()
+{
+
+ // Reading input
+ typename InputImageType::Pointer input = this->template GetInput<InputImageType>(0);
+
+ // Main filter
+ typedef typename InputImageType::PixelType PixelType;
+ typedef itk::Image<uchar, InputImageType::ImageDimension> OutputImageType;
+
+ // Filter
+ typedef itk::BinaryThresholdImageFilter<InputImageType, OutputImageType> BinaryThresholdImageFilterType;
+ typename BinaryThresholdImageFilterType::Pointer thresholdFilter=BinaryThresholdImageFilterType::New();
+ thresholdFilter->SetInput(input);
+ thresholdFilter->SetInsideValue(mArgsInfo.fg_arg);
+
+ if (mArgsInfo.lower_given) thresholdFilter->SetLowerThreshold(static_cast<PixelType>(mArgsInfo.lower_arg));
+ if (mArgsInfo.upper_given) thresholdFilter->SetUpperThreshold(static_cast<PixelType>(mArgsInfo.upper_arg));
+
+ /* Three modes :
+ - FG -> only use FG value for pixel in the Foreground (or Inside), keep input values for outside
+ - BG -> only use BG value for pixel in the Background (or Outside), keep input values for inside
+ - both -> use FG and BG (real binary image)
+ */
+ if (mArgsInfo.mode_arg == std::string("both")) {
+ thresholdFilter->SetOutsideValue(mArgsInfo.bg_arg);
+ thresholdFilter->Update();
+ typename OutputImageType::Pointer outputImage = thresholdFilter->GetOutput();
+ this->template SetNextOutput<OutputImageType>(outputImage);
+ } else {
+ typename InputImageType::Pointer outputImage;
+ thresholdFilter->SetOutsideValue(0);
+ if (mArgsInfo.mode_arg == std::string("BG")) {
+ typedef itk::MaskImageFilter<InputImageType,OutputImageType> maskFilterType;
+ typename maskFilterType::Pointer maskFilter = maskFilterType::New();
+ maskFilter->SetInput1(input);
+ maskFilter->SetInput2(thresholdFilter->GetOutput());
+ maskFilter->SetOutsideValue(mArgsInfo.bg_arg);
+ maskFilter->Update();
+ outputImage = maskFilter->GetOutput();
+ } else {
+ typedef itk::MaskNegatedImageFilter<InputImageType,OutputImageType> maskFilterType;
+ typename maskFilterType::Pointer maskFilter = maskFilterType::New();
+ maskFilter->SetInput1(input);
+ maskFilter->SetInput2(thresholdFilter->GetOutput());
+ maskFilter->SetOutsideValue(mArgsInfo.fg_arg);
+ maskFilter->Update();
+ outputImage = maskFilter->GetOutput();
+ }
+ // Write/Save results
+ this->template SetNextOutput<InputImageType>(outputImage);
+ }
+}
+//--------------------------------------------------------------------
+
+
+}//end clitk
+
+#endif //#define clitkProfileImageGenericFilter_cxx
--- /dev/null
+/*=========================================================================
+ Program: vv http://www.creatis.insa-lyon.fr/rio/vv
+
+ 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 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.
+
+ 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 clitkProfileImageGenericFilter_h
+#define clitkProfileImageGenericFilter_h
+
+#include "clitkIO.h"
+#include "clitkImageToImageGenericFilter.h"
+#include "clitkProfileImage_ggo.h"
+
+//--------------------------------------------------------------------
+namespace clitk
+{
+
+ class ITK_EXPORT ProfileImageGenericFilter:
+ public ImageToImageGenericFilter<ProfileImageGenericFilter>
+ {
+
+ public:
+ //--------------------------------------------------------------------
+ typedef ProfileImageGenericFilter Self;
+ typedef itk::SmartPointer<Self> Pointer;
+ typedef itk::SmartPointer<const Self> ConstPointer;
+ typedef args_info_clitkProfileImage args_info_type;
+
+ //--------------------------------------------------------------------
+ // Method for creation through the object factory
+ // and Run-time type information (and related methods)
+ itkNewMacro(Self);
+ itkTypeMacro(ProfileImageGenericFilter, LightObject);
+
+ //--------------------------------------------------------------------
+ void SetArgsInfo(const args_info_type & a);
+
+ //--------------------------------------------------------------------
+ // Main function called each time the filter is updated
+ template<class InputImageType>
+ void UpdateWithInputImageType();
+
+ protected:
+ ProfileImageGenericFilter();
+ template<unsigned int Dim> void InitializeImageType();
+ args_info_type mArgsInfo;
+
+ }; // end class
+ //--------------------------------------------------------------------
+
+} // end namespace clitk
+//--------------------------------------------------------------------
+
+#endif // #define clitkProfileImageGenericFilter_h
vvToolConvert ## with dummy vvToolConvert.ui
vvToolROIManager
vvToolSegmentation
+ vvToolProfile
## these ones are for tests (not working)
# vvToolTest
# vvToolFoo
# Future issues : when tool depend on other tools ... how to manage that ?
# >> add the relevant $_LIBS variable to the tool that has dependencies?
set(vvToolBinarize_LIBS clitkBinarizeImageLib)
+set(vvToolProfile_LIBS clitkProfileImageLib)
set(vvToolResample_LIBS clitkResampleImageLib)
set(vvToolConvert_LIBS clitkImageConvertLib)
set(vvToolExtractPatient_LIBS clitkSegmentationGgoLib)
--- /dev/null
+<?xml version="1.0" encoding="UTF-8"?>
+<ui version="4.0">
+ <class>vvToolProfile</class>
+ <widget class="QWidget" name="vvToolProfile">
+ <property name="geometry">
+ <rect>
+ <x>0</x>
+ <y>0</y>
+ <width>433</width>
+ <height>222</height>
+ </rect>
+ </property>
+ <property name="windowTitle">
+ <string>Profile image</string>
+ </property>
+ <layout class="QVBoxLayout" name="verticalLayout">
+ <item>
+ <layout class="QVBoxLayout" name="verticalLayout_3">
+ <item>
+ <layout class="QGridLayout" name="gridLayout_2">
+ <item row="2" column="2">
+ <widget class="vvIntensityValueSlider" name="mThresholdSlider2" native="true">
+ <property name="enabled">
+ <bool>false</bool>
+ </property>
+ </widget>
+ </item>
+ <item row="1" column="1">
+ <widget class="QLabel" name="label_2">
+ <property name="text">
+ <string>Foreground (FG) is greater than : </string>
+ </property>
+ </widget>
+ </item>
+ <item row="1" column="2">
+ <widget class="vvIntensityValueSlider" name="mThresholdSlider1" native="true"/>
+ </item>
+ <item row="2" column="1">
+ <widget class="QRadioButton" name="mRadioButtonLowerThan">
+ <property name="text">
+ <string>and lower than</string>
+ </property>
+ <property name="autoExclusive">
+ <bool>false</bool>
+ </property>
+ </widget>
+ </item>
+ </layout>
+ </item>
+ </layout>
+ </item>
+ <item>
+ <layout class="QVBoxLayout" name="verticalLayout_2">
+ <item>
+ <widget class="Line" name="line_2">
+ <property name="orientation">
+ <enum>Qt::Horizontal</enum>
+ </property>
+ </widget>
+ </item>
+ <item>
+ <widget class="QLabel" name="label">
+ <property name="text">
+ <string>Resulting binary image:</string>
+ </property>
+ </widget>
+ </item>
+ <item>
+ <layout class="QHBoxLayout" name="horizontalLayout_4">
+ <item>
+ <widget class="QCheckBox" name="mCheckBoxUseFG">
+ <property name="text">
+ <string>Use FG</string>
+ </property>
+ <property name="checked">
+ <bool>false</bool>
+ </property>
+ </widget>
+ </item>
+ <item>
+ <widget class="vvIntensityValueSlider" name="mFGSlider" native="true">
+ <property name="enabled">
+ <bool>false</bool>
+ </property>
+ </widget>
+ </item>
+ </layout>
+ </item>
+ <item>
+ <layout class="QHBoxLayout" name="horizontalLayout_5">
+ <item>
+ <widget class="QCheckBox" name="mCheckBoxUseBG">
+ <property name="text">
+ <string>Use BG</string>
+ </property>
+ <property name="checked">
+ <bool>true</bool>
+ </property>
+ </widget>
+ </item>
+ <item>
+ <widget class="vvIntensityValueSlider" name="mBGSlider" native="true"/>
+ </item>
+ </layout>
+ </item>
+ </layout>
+ </item>
+ <item>
+ <widget class="Line" name="line_3">
+ <property name="orientation">
+ <enum>Qt::Horizontal</enum>
+ </property>
+ </widget>
+ </item>
+ <item>
+ <widget class="QCheckBox" name="mCheckBoxInteractiveDisplay">
+ <property name="enabled">
+ <bool>true</bool>
+ </property>
+ <property name="text">
+ <string>Interactive (unchek to disable on the fly contours drawing)</string>
+ </property>
+ <property name="checked">
+ <bool>true</bool>
+ </property>
+ </widget>
+ </item>
+ </layout>
+ </widget>
+ <customwidgets>
+ <customwidget>
+ <class>vvIntensityValueSlider</class>
+ <extends>QWidget</extends>
+ <header>vvIntensityValueSlider.h</header>
+ <container>1</container>
+ </customwidget>
+ </customwidgets>
+ <resources/>
+ <connections>
+ <connection>
+ <sender>mRadioButtonLowerThan</sender>
+ <signal>toggled(bool)</signal>
+ <receiver>mThresholdSlider2</receiver>
+ <slot>setEnabled(bool)</slot>
+ <hints>
+ <hint type="sourcelabel">
+ <x>85</x>
+ <y>129</y>
+ </hint>
+ <hint type="destinationlabel">
+ <x>305</x>
+ <y>129</y>
+ </hint>
+ </hints>
+ </connection>
+ <connection>
+ <sender>mCheckBoxUseBG</sender>
+ <signal>toggled(bool)</signal>
+ <receiver>mBGSlider</receiver>
+ <slot>setEnabled(bool)</slot>
+ <hints>
+ <hint type="sourcelabel">
+ <x>79</x>
+ <y>203</y>
+ </hint>
+ <hint type="destinationlabel">
+ <x>395</x>
+ <y>225</y>
+ </hint>
+ </hints>
+ </connection>
+ <connection>
+ <sender>mCheckBoxUseFG</sender>
+ <signal>toggled(bool)</signal>
+ <receiver>mFGSlider</receiver>
+ <slot>setEnabled(bool)</slot>
+ <hints>
+ <hint type="sourcelabel">
+ <x>63</x>
+ <y>177</y>
+ </hint>
+ <hint type="destinationlabel">
+ <x>242</x>
+ <y>177</y>
+ </hint>
+ </hints>
+ </connection>
+ </connections>
+</ui>
<file>icons/8b.png</file>
<file>icons/1b.png</file>
<file>icons/binarize.png</file>
+ <file>icons/profile.png</file>
<file>icons/resample.png</file>
<file>icons/crop.png</file>
<file>icons/splashscreen2.png</file>
--- /dev/null
+/*=========================================================================
+ Program: vv http://www.creatis.insa-lyon.fr/rio/vv
+
+ 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 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.
+
+ 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
+ ===========================================================================**/
+
+// vv
+#include "vvToolProfile.h"
+#include "vvSlicerManager.h"
+#include "vvSlicer.h"
+#include "vvToolInputSelectorWidget.h"
+
+// clitk
+#include "clitkProfileImageGenericFilter.h"
+
+// vtk
+#include <vtkImageActor.h>
+#include <vtkCamera.h>
+#include <vtkImageClip.h>
+#include <vtkRenderWindow.h>
+
+
+//------------------------------------------------------------------------------
+// Create the tool and automagically (I like this word) insert it in
+// the main window menu.
+ADD_TOOL(vvToolProfile);
+//------------------------------------------------------------------------------
+
+
+//------------------------------------------------------------------------------
+void vvToolProfile::Initialize()
+{
+ SetToolName("Profile");
+ SetToolMenuName("Intensity Profile");
+ SetToolIconFilename(":/common/icons/profile.png");
+ SetToolTip("Display the intensity profile between 2 points of the image.");
+ SetToolExperimental(false);
+}
+//------------------------------------------------------------------------------
+
+
+//------------------------------------------------------------------------------
+vvToolProfile::vvToolProfile(vvMainWindowBase * parent, Qt::WindowFlags f)
+ :vvToolWidgetBase(parent,f),
+ vvToolBase<vvToolProfile>(parent),
+ Ui::vvToolProfile()
+{
+ // GUI Initialization
+ Ui_vvToolProfile::setupUi(mToolWidget);
+ mInteractiveDisplayIsEnabled = mCheckBoxInteractiveDisplay->isChecked();
+
+ // Connect signals & slots
+ connect(mRadioButtonLowerThan, SIGNAL(toggled(bool)), this, SLOT(enableLowerThan(bool)));
+ connect(mCheckBoxUseFG, SIGNAL(toggled(bool)), this, SLOT(useFGBGtoggled(bool)));
+ connect(mCheckBoxUseBG, SIGNAL(toggled(bool)), this, SLOT(useFGBGtoggled(bool)));
+ connect(mCheckBoxInteractiveDisplay, SIGNAL(toggled(bool)), this, SLOT(InteractiveDisplayToggled(bool)));
+
+ // Initialize some widget
+ mThresholdSlider1->SetText("");
+ mThresholdSlider2->SetText("");
+ mFGSlider->SetText("Foreground value");
+ mBGSlider->SetText("Background value");
+
+ // Main filter
+ mFilter = clitk::ProfileImageGenericFilter::New();
+
+ // Set how many inputs are needed for this tool
+ AddInputSelector("Select one image", mFilter);
+}
+//------------------------------------------------------------------------------
+
+
+//------------------------------------------------------------------------------
+vvToolProfile::~vvToolProfile()
+{
+}
+//------------------------------------------------------------------------------
+
+
+//------------------------------------------------------------------------------
+void vvToolProfile::InteractiveDisplayToggled(bool b)
+{
+ mInteractiveDisplayIsEnabled = b;
+ if (!mInteractiveDisplayIsEnabled) {
+ RemoveVTKObjects();
+ } else {
+ for(unsigned int i=0; i<mImageContour.size(); i++) {
+ mImageContour[i]->ShowActors();
+ if (mRadioButtonLowerThan->isChecked())
+ mImageContourLower[i]->ShowActors();
+ }
+ if (mCurrentSlicerManager)
+ mCurrentSlicerManager->Render();
+ }
+}
+//------------------------------------------------------------------------------
+
+
+//------------------------------------------------------------------------------
+void vvToolProfile::RemoveVTKObjects()
+{
+ for(unsigned int i=0; i<mImageContour.size(); i++) {
+ mImageContour[i]->HideActors();
+ mImageContourLower[i]->HideActors();
+ }
+ if (mCurrentSlicerManager)
+ mCurrentSlicerManager->Render();
+}
+//------------------------------------------------------------------------------
+
+
+//------------------------------------------------------------------------------
+bool vvToolProfile::close()
+{
+ // RemoveVTKObjects();
+ return vvToolWidgetBase::close();
+}
+//------------------------------------------------------------------------------
+
+
+//------------------------------------------------------------------------------
+void vvToolProfile::closeEvent(QCloseEvent *event)
+{
+ RemoveVTKObjects();
+ event->accept();
+}
+//------------------------------------------------------------------------------
+
+
+//------------------------------------------------------------------------------
+void vvToolProfile::reject()
+{
+ // DD("vvToolProfile::reject");
+ RemoveVTKObjects();
+ return vvToolWidgetBase::reject();
+}
+//------------------------------------------------------------------------------
+
+
+//------------------------------------------------------------------------------
+void vvToolProfile::enableLowerThan(bool b)
+{
+ if (!b) {
+ mThresholdSlider1->resetMaximum();
+ for(unsigned int i=0; i<mImageContour.size(); i++) {
+ mImageContourLower[i]->HideActors();
+ }
+ mCurrentSlicerManager->Render();
+ } else {
+ valueChangedT1(mThresholdSlider1->GetValue());
+ valueChangedT2(mThresholdSlider2->GetValue());
+ for(unsigned int i=0; i<mImageContour.size(); i++) {
+ mImageContourLower[i]->ShowActors();
+ }
+ mCurrentSlicerManager->Render();
+ }
+}
+//------------------------------------------------------------------------------
+
+
+//------------------------------------------------------------------------------
+void vvToolProfile::useFGBGtoggled(bool)
+{
+ if (!mCheckBoxUseBG->isChecked() && !mCheckBoxUseFG->isChecked())
+ mCheckBoxUseBG->toggle();
+}
+//------------------------------------------------------------------------------
+
+
+//------------------------------------------------------------------------------
+// void vvToolProfile::InputIsSelected(std::vector<vvSlicerManager *> & m) {
+// DD("vvToolProfile::InputIsSelected vector in Profile");
+// DD(m.size());
+// }
+void vvToolProfile::InputIsSelected(vvSlicerManager * m)
+{
+ mCurrentSlicerManager = m;
+
+ // Specific for this gui
+ mThresholdSlider1->SetValue(0);
+ mThresholdSlider2->SetValue(0);
+ mThresholdSlider1->SetImage(mCurrentImage);
+ mThresholdSlider2->SetImage(mCurrentImage);
+ mFGSlider->SetImage(mCurrentImage);
+ mBGSlider->SetImage(mCurrentImage);
+ // DD(mCurrentSlicerManager->GetFileName().c_str());
+ // mFGSlider->SetMaximum(mCurrentImage->GetFirstVTKImageData()->GetScalarTypeMax());
+ // mFGSlider->SetMinimum(mCurrentImage->GetFirstVTKImageData()->GetScalarTypeMin());
+ // mBGSlider->SetMaximum(mCurrentImage->GetFirstVTKImageData()->GetScalarTypeMax());
+ // mBGSlider->SetMinimum(mCurrentImage->GetFirstVTKImageData()->GetScalarTypeMin());
+
+ // Output is uchar ...
+ mFGSlider->SetMaximum(255);
+ mFGSlider->SetMinimum(0);
+ mBGSlider->SetMaximum(255);
+ mBGSlider->SetMinimum(0);
+
+ mFGSlider->SetValue(1);
+ mBGSlider->SetValue(0);
+ mFGSlider->SetSingleStep(1);
+ mBGSlider->SetSingleStep(1);
+
+ // VTK objects for interactive display
+ for(int i=0; i<mCurrentSlicerManager->GetNumberOfSlicers(); i++) {
+ mImageContour.push_back(vvImageContour::New());
+ mImageContour[i]->SetSlicer(mCurrentSlicerManager->GetSlicer(i));
+ mImageContour[i]->SetColor(1.0, 0.0, 0.0);
+ mImageContour[i]->SetDepth(0); // to be in front of (whe used with ROI tool)
+ mImageContourLower.push_back(vvImageContour::New());
+ mImageContourLower[i]->SetSlicer(mCurrentSlicerManager->GetSlicer(i));
+ mImageContourLower[i]->SetColor(0.0, 0.0, 1.0);
+ mImageContourLower[i]->SetDepth(100); // to be in front of (whe used with ROI tool)
+ }
+ valueChangedT1(mThresholdSlider1->GetValue());
+
+ connect(mThresholdSlider1, SIGNAL(valueChanged(double)), this, SLOT(valueChangedT1(double)));
+ connect(mThresholdSlider2, SIGNAL(valueChanged(double)), this, SLOT(valueChangedT2(double)));
+
+ connect(mCurrentSlicerManager,SIGNAL(UpdateSlice(int,int)),this,SLOT(UpdateSlice(int, int)));
+ connect(mCurrentSlicerManager,SIGNAL(UpdateTSlice(int,int)),this,SLOT(UpdateSlice(int, int)));
+
+ connect(mCurrentSlicerManager,SIGNAL(UpdateOrientation(int,int)),this,SLOT(UpdateOrientation(int, int)));
+
+ // connect(mCurrentSlicerManager, SIGNAL(LeftButtonReleaseSignal(int)), SLOT(LeftButtonReleaseEvent(int)));
+ InteractiveDisplayToggled(mInteractiveDisplayIsEnabled);
+}
+//------------------------------------------------------------------------------
+
+
+//------------------------------------------------------------------------------
+// void vvToolProfile::LeftButtonReleaseEvent(int slicer) {
+// DD("LeftButtonReleaseEvent");
+// for(int i=0; i<mCurrentSlicerManager->GetNumberOfSlicers(); i++) {
+// if (i == slicer);
+// mCurrentSlicerManager->GetSlicer(i)->GetRenderWindow()->Render();
+// }
+// }
+//------------------------------------------------------------------------------
+
+
+//------------------------------------------------------------------------------
+void vvToolProfile::UpdateOrientation(int slicer,int orientation)
+{
+ Update(slicer);
+}
+//------------------------------------------------------------------------------
+
+//------------------------------------------------------------------------------
+void vvToolProfile::UpdateSlice(int slicer,int slices)
+{
+ Update(slicer);
+}
+//------------------------------------------------------------------------------
+
+//------------------------------------------------------------------------------
+void vvToolProfile::Update(int slicer)
+{
+ if (!mInteractiveDisplayIsEnabled) return;
+ if (!mCurrentSlicerManager) close();
+ mImageContour[slicer]->Update(mThresholdSlider1->GetValue());
+ if (mRadioButtonLowerThan->isChecked())
+ mImageContourLower[slicer]->Update(mThresholdSlider2->GetValue());
+}
+//------------------------------------------------------------------------------
+
+//------------------------------------------------------------------------------
+void vvToolProfile::GetArgsInfoFromGUI()
+{
+
+ /* //KEEP THIS FOR READING GGO FROM FILE
+ int argc=1;
+ std::string a = "toto";
+ char * const* argv = new char*;
+ //a.c_str();
+ struct cmdline_parser_params p;
+ p.check_required = 0;
+ int good = cmdline_parser_ext(argc, argv, &args_info, &p);
+ DD(good);
+ */
+ cmdline_parser_clitkProfileImage_init(&mArgsInfo); // Initialisation to default
+ bool inverseBGandFG = false;
+
+ mArgsInfo.lower_given = 1;
+ mArgsInfo.lower_arg = mThresholdSlider1->GetValue();
+ if (mRadioButtonLowerThan->isChecked()) {
+ mArgsInfo.upper_given = 1;
+ mArgsInfo.upper_arg = mThresholdSlider2->GetValue();
+ if (mArgsInfo.upper_arg<mArgsInfo.lower_arg) {
+ mArgsInfo.upper_given = 0;
+ DD("TODO : lower thres greater than greater thres ! Ignoring ");
+ }
+ }
+
+ mArgsInfo.fg_arg = mFGSlider->GetValue();
+ mArgsInfo.bg_arg = mBGSlider->GetValue();
+
+ if (inverseBGandFG) {
+ mArgsInfo.fg_arg = mFGSlider->GetValue();
+ mArgsInfo.bg_arg = mBGSlider->GetValue();
+ }
+ mArgsInfo.fg_given = 1;
+ mArgsInfo.bg_given = 1;
+
+ if (mCheckBoxUseBG->isChecked()) {
+ if (mCheckBoxUseFG->isChecked()) mArgsInfo.mode_arg = (char*)"both";
+ else mArgsInfo.mode_arg = (char*)"BG";
+ } else mArgsInfo.mode_arg = (char*)"FG";
+
+ mArgsInfo.verbose_flag = false;
+
+ // // Required (even if not used)
+ // mArgsInfo.input_given = 0;
+ // mArgsInfo.output_given = 0;
+
+ // mArgsInfo.input_arg = new char;
+ // mArgsInfo.output_arg = new char;
+}
+//------------------------------------------------------------------------------
+
+
+//------------------------------------------------------------------------------
+void vvToolProfile::apply()
+{
+ if (!mCurrentSlicerManager) close();
+ QApplication::setOverrideCursor(QCursor(Qt::WaitCursor));
+ GetArgsInfoFromGUI();
+
+ // Main filter
+ clitk::ProfileImageGenericFilter::Pointer filter =
+ clitk::ProfileImageGenericFilter::New();
+ filter->SetInputVVImage(mCurrentImage);
+ filter->SetArgsInfo(mArgsInfo);
+ filter->Update();
+
+
+ // Output
+ vvImage::Pointer output = filter->GetOutputVVImage();
+ std::ostringstream osstream;
+ osstream << "Profiled_" << mCurrentSlicerManager->GetSlicer(0)->GetFileName() << ".mhd";
+ AddImage(output,osstream.str());
+ QApplication::restoreOverrideCursor();
+ close();
+}
+//------------------------------------------------------------------------------
+
+
+//------------------------------------------------------------------------------
+void vvToolProfile::valueChangedT2(double v)
+{
+ // DD("valueChangedT2");
+ if (mRadioButtonLowerThan->isChecked()) {
+ mThresholdSlider1->SetMaximum(v);
+ if (!mInteractiveDisplayIsEnabled) return;
+ for(int i=0;i<mCurrentSlicerManager->GetNumberOfSlicers(); i++) {
+ mImageContourLower[i]->Update(v);
+ }
+ mCurrentSlicerManager->Render();
+ }
+}
+//------------------------------------------------------------------------------
+
+
+//------------------------------------------------------------------------------
+void vvToolProfile::valueChangedT1(double v)
+{
+ // DD("valueChangedT1");
+ if (!mCurrentSlicerManager) close();
+ mThresholdSlider2->SetMinimum(v);
+ // int m1 = (int)lrint(v);
+ if (!mInteractiveDisplayIsEnabled) return;
+ for(int i=0;i<mCurrentSlicerManager->GetNumberOfSlicers(); i++) {
+ mImageContour[i]->Update(v);
+ }
+ mCurrentSlicerManager->Render();
+}
+//------------------------------------------------------------------------------
--- /dev/null
+/*=========================================================================
+ Program: vv http://www.creatis.insa-lyon.fr/rio/vv
+
+ 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 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.
+
+ 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 VVTOOLPROFILE_H
+#define VVTOOLPROFILE_H
+
+#include <QtUiPlugin/QDesignerExportWidget>
+
+#include "vvToolBase.h"
+#include "vvToolWidgetBase.h"
+#include "vvImageContour.h"
+#include "ui_vvToolProfile.h"
+
+#include "clitkProfileImage_ggo.h"
+
+//------------------------------------------------------------------------------
+class vvToolProfile:
+ public vvToolWidgetBase,
+ public vvToolBase<vvToolProfile>,
+ private Ui::vvToolProfile
+{
+ Q_OBJECT
+ public:
+ vvToolProfile(vvMainWindowBase * parent=0, Qt::WindowFlags f=0);
+ ~vvToolProfile();
+
+ //-----------------------------------------------------
+ static void Initialize();
+ void GetArgsInfoFromGUI();
+ virtual void InputIsSelected(vvSlicerManager * m);
+
+ //-----------------------------------------------------
+ public slots:
+ virtual void apply();
+ virtual bool close();
+ virtual void reject();
+ void valueChangedT1(double v);
+ void valueChangedT2(double v);
+ void UpdateOrientation(int slicer, int orientation);
+ void UpdateSlice(int slicer,int slices);
+ void enableLowerThan(bool b);
+ void useFGBGtoggled(bool);
+ void InteractiveDisplayToggled(bool b);
+ // void LeftButtonReleaseEvent(int slicer);
+
+ protected:
+ void RemoveVTKObjects();
+ virtual void closeEvent(QCloseEvent *event);
+ Ui::vvToolProfile ui;
+ args_info_clitkProfileImage mArgsInfo;
+ std::vector<vvImageContour::Pointer> mImageContour;
+ std::vector<vvImageContour::Pointer> mImageContourLower;
+ bool mInteractiveDisplayIsEnabled;
+
+ void Update(int slicer);
+
+}; // end class vvToolProfile
+//------------------------------------------------------------------------------
+
+#endif
+
git://git.creatis.insa-lyon.fr / clitk.git / commitdiff
